-- dump date 20140620_024818 -- class Genbank::misc_feature -- table misc_feature_note -- id note 394000001 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 394000002 MerR family regulatory protein; Region: MerR; pfam00376 394000003 DNA binding residues [nucleotide binding] 394000004 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 394000005 P-loop; other site 394000006 Magnesium ion binding site [ion binding]; other site 394000007 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 394000008 Magnesium ion binding site [ion binding]; other site 394000009 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 394000010 ParB-like nuclease domain; Region: ParB; smart00470 394000011 replication initiation protein RepC; Provisional; Region: PRK13824 394000012 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394000013 putative DNA binding site [nucleotide binding]; other site 394000014 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 394000015 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 394000016 DNA-binding site [nucleotide binding]; DNA binding site 394000017 RNA-binding motif; other site 394000018 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 394000019 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 394000020 catalytic residues [active] 394000021 catalytic nucleophile [active] 394000022 Presynaptic Site I dimer interface [polypeptide binding]; other site 394000023 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 394000024 Synaptic Flat tetramer interface [polypeptide binding]; other site 394000025 Synaptic Site I dimer interface [polypeptide binding]; other site 394000026 DNA binding site [nucleotide binding] 394000027 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 394000028 HTH DNA binding domain; Region: HTH_13; pfam11972 394000029 Restriction endonuclease; Region: Mrr_cat; pfam04471 394000030 Restriction endonuclease; Region: Mrr_cat; pfam04471 394000031 Toll - interleukin 1 - resistance; Region: TIR; smart00255 394000032 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs; Region: Piwi_piwi-like_ProArk; cd04659 394000033 5' RNA guide strand anchoring site; other site 394000034 active site 394000035 Sir2-like: Prokaryotic group of uncharacterized Sir2-like proteins which lack certain key catalytic residues and conserved zinc binding cysteines; and are members of the SIR2 superfamily of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIR2-like; cd01406 394000036 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 394000037 active site 394000038 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 394000039 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 394000040 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394000041 Walker A motif; other site 394000042 ATP binding site [chemical binding]; other site 394000043 Walker B motif; other site 394000044 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 394000045 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394000046 putative DNA binding site [nucleotide binding]; other site 394000047 putative Zn2+ binding site [ion binding]; other site 394000048 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394000049 Integrase core domain; Region: rve; pfam00665 394000050 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394000051 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 394000052 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 394000053 Helix-turn-helix domain; Region: HTH_28; pfam13518 394000054 Winged helix-turn helix; Region: HTH_29; pfam13551 394000055 Homeodomain-like domain; Region: HTH_32; pfam13565 394000056 Integrase core domain; Region: rve; pfam00665 394000057 Helix-turn-helix domain; Region: HTH_28; pfam13518 394000058 Winged helix-turn helix; Region: HTH_29; pfam13551 394000059 Homeodomain-like domain; Region: HTH_32; pfam13565 394000060 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 394000061 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 394000062 catalytic residues [active] 394000063 catalytic nucleophile [active] 394000064 Recombinase; Region: Recombinase; pfam07508 394000065 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 394000066 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 394000067 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 394000068 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 394000069 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 394000070 Predicted transcriptional regulator [Transcription]; Region: COG4957 394000071 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394000072 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394000073 sequence-specific DNA binding site [nucleotide binding]; other site 394000074 salt bridge; other site 394000075 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394000076 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394000077 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394000078 dimerization interface [polypeptide binding]; other site 394000079 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 394000080 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 394000081 Substrate binding site; other site 394000082 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 394000083 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 394000084 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 394000085 active site 394000086 substrate binding site [chemical binding]; other site 394000087 metal binding site [ion binding]; metal-binding site 394000088 Nodulation protein Z (NodZ); Region: NodZ; pfam05830 394000089 GDP-mannose 4,6-dehydratase; Region: gmd; TIGR01472 394000090 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 394000091 NADP-binding site; other site 394000092 homotetramer interface [polypeptide binding]; other site 394000093 substrate binding site [chemical binding]; other site 394000094 homodimer interface [polypeptide binding]; other site 394000095 active site 394000096 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 394000097 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 394000098 NADP binding site [chemical binding]; other site 394000099 active site 394000100 putative substrate binding site [chemical binding]; other site 394000101 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 394000102 active site lid residues [active] 394000103 substrate binding pocket [chemical binding]; other site 394000104 catalytic residues [active] 394000105 substrate-Mg2+ binding site; other site 394000106 aspartate-rich region 1; other site 394000107 aspartate-rich region 2; other site 394000108 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 394000109 active site lid residues [active] 394000110 substrate binding pocket [chemical binding]; other site 394000111 catalytic residues [active] 394000112 substrate-Mg2+ binding site; other site 394000113 aspartate-rich region 1; other site 394000114 aspartate-rich region 2; other site 394000115 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 394000116 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 394000117 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 394000118 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 394000119 Active site cavity [active] 394000120 catalytic acid [active] 394000121 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394000122 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394000123 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394000124 dimerization interface [polypeptide binding]; other site 394000125 Yersinia/Haemophilus virulence surface antigen; Region: Peptidase_C58; pfam03543 394000126 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 394000127 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 394000128 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394000129 binding surface 394000130 TPR motif; other site 394000131 Tetratricopeptide repeat; Region: TPR_16; pfam13432 394000132 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 394000133 FHIPEP family; Region: FHIPEP; pfam00771 394000134 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 394000135 Type III secretory pathway, component EscU [Intracellular trafficking and secretion]; Region: EscU; COG4792 394000136 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 394000137 type III secretion protein SpaR/YscT/HrcT; Region: fliR_like_III; TIGR01401 394000138 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 394000139 type III secretion system protein YscR; Provisional; Region: PRK12797 394000140 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 394000141 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 394000142 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 394000143 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 394000144 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 394000145 Walker A motif; other site 394000146 ATP binding site [chemical binding]; other site 394000147 Walker B motif; other site 394000148 Nodulation protein NolV; Region: NolV; pfam06635 394000149 Flagellar assembly protein FliH; Region: FliH; pfam02108 394000150 Type III secretory pathway, lipoprotein EscJ [Intracellular trafficking and secretion]; Region: EscJ; COG4669 394000151 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 394000152 NolX protein; Region: NolX; pfam05819 394000153 ParB-like nuclease domain; Region: ParBc; pfam02195 394000154 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 394000155 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Y4yA; Region: PLPDE_III_Y4yA_like; cd06842 394000156 dimer interface [polypeptide binding]; other site 394000157 active site 394000158 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 394000159 catalytic residues [active] 394000160 substrate binding site [chemical binding]; other site 394000161 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 394000162 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 394000163 dimer interface [polypeptide binding]; other site 394000164 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394000165 catalytic residue [active] 394000166 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 394000167 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 394000168 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 394000169 IucA / IucC family; Region: IucA_IucC; pfam04183 394000170 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 394000171 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394000172 Major Facilitator Superfamily; Region: MFS_1; pfam07690 394000173 putative substrate translocation pore; other site 394000174 Type IV pili component [Cell motility and secretion]; Region: COG5461 394000175 pilus (Caulobacter type) biogenesis lipoprotein CpaD; Region: pilus_cpaD; TIGR02522 394000176 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 394000177 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 394000178 BON domain; Region: BON; pfam04972 394000179 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 394000180 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 394000181 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394000182 active site 394000183 phosphorylation site [posttranslational modification] 394000184 intermolecular recognition site; other site 394000185 dimerization interface [polypeptide binding]; other site 394000186 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394000187 DNA binding site [nucleotide binding] 394000188 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394000189 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394000190 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 394000191 putative substrate binding pocket [chemical binding]; other site 394000192 putative dimerization interface [polypeptide binding]; other site 394000193 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 394000194 Exopolysaccharide production repressor; Region: SyrA; pfam11089 394000195 Rop-like; Region: Rop-like; pfam05082 394000196 Protein of unknown function, DUF269; Region: DUF269; pfam03270 394000197 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 394000198 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 394000199 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 394000200 MoFe protein beta/alpha subunit interactions; other site 394000201 Beta subunit P cluster binding residues; other site 394000202 MoFe protein beta subunit/Fe protein contacts; other site 394000203 MoFe protein dimer/ dimer interactions; other site 394000204 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 394000205 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 394000206 MoFe protein alpha/beta subunit interactions; other site 394000207 Alpha subunit P cluster binding residues; other site 394000208 FeMoco binding residues [chemical binding]; other site 394000209 MoFe protein alpha subunit/Fe protein contacts; other site 394000210 MoFe protein dimer/ dimer interactions; other site 394000211 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 394000212 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 394000213 Nucleotide-binding sites [chemical binding]; other site 394000214 Walker A motif; other site 394000215 Switch I region of nucleotide binding site; other site 394000216 Fe4S4 binding sites [ion binding]; other site 394000217 Switch II region of nucleotide binding site; other site 394000218 Phasin protein; Region: Phasin_2; cl11491 394000219 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 394000220 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 394000221 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 394000222 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 394000223 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394000224 catalytic residue [active] 394000225 nitrogenase stabilizing/protective protein; Provisional; Region: nifW; PRK00810 394000226 VirK protein; Region: VirK; pfam06903 394000227 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 394000228 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 394000229 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 394000230 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394000231 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394000232 homodimer interface [polypeptide binding]; other site 394000233 catalytic residue [active] 394000234 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394000235 putative substrate translocation pore; other site 394000236 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394000237 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394000238 non-specific DNA binding site [nucleotide binding]; other site 394000239 salt bridge; other site 394000240 sequence-specific DNA binding site [nucleotide binding]; other site 394000241 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 394000242 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 394000243 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 394000244 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 394000245 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 394000246 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 394000247 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 394000248 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 394000249 Protein of unknown function, DUF269; Region: DUF269; cl03973 394000250 probable nitrogen fixation protein; Region: TIGR02935 394000251 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 394000252 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 394000253 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 394000254 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 394000255 Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifE_I; cd01968 394000256 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 394000257 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 394000258 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 394000259 MoFe protein beta/alpha subunit interactions; other site 394000260 Beta subunit P cluster binding residues; other site 394000261 MoFe protein beta subunit/Fe protein contacts; other site 394000262 MoFe protein dimer/ dimer interactions; other site 394000263 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 394000264 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 394000265 MoFe protein alpha/beta subunit interactions; other site 394000266 Alpha subunit P cluster binding residues; other site 394000267 FeMoco binding residues [chemical binding]; other site 394000268 MoFe protein alpha subunit/Fe protein contacts; other site 394000269 MoFe protein dimer/ dimer interactions; other site 394000270 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 394000271 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 394000272 Nucleotide-binding sites [chemical binding]; other site 394000273 Walker A motif; other site 394000274 Switch I region of nucleotide binding site; other site 394000275 Fe4S4 binding sites [ion binding]; other site 394000276 Switch II region of nucleotide binding site; other site 394000277 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 394000278 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 394000279 short chain dehydrogenase; Validated; Region: PRK06484 394000280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394000281 NAD(P) binding site [chemical binding]; other site 394000282 active site 394000283 classical (c) SDRs; Region: SDR_c; cd05233 394000284 NAD(P) binding site [chemical binding]; other site 394000285 active site 394000286 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 394000287 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 394000288 Cytochrome P450; Region: p450; cl12078 394000289 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 394000290 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 394000291 NifQ; Region: NifQ; pfam04891 394000292 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 394000293 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 394000294 catalytic triad [active] 394000295 dimer interface [polypeptide binding]; other site 394000296 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 394000297 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 394000298 Ligand binding site [chemical binding]; other site 394000299 Electron transfer flavoprotein domain; Region: ETF; pfam01012 394000300 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 394000301 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 394000302 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 394000303 oxidoreductase; Provisional; Region: PRK10015 394000304 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 394000305 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 394000306 Nif-specific regulatory protein; Region: nifA; TIGR01817 394000307 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 394000308 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394000309 Walker A motif; other site 394000310 ATP binding site [chemical binding]; other site 394000311 Walker B motif; other site 394000312 arginine finger; other site 394000313 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 394000314 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 394000315 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394000316 FeS/SAM binding site; other site 394000317 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 394000318 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 394000319 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 394000320 NifZ domain; Region: NifZ; pfam04319 394000321 Nitrogen fixation protein [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NifU; COG5554 394000322 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394000323 Integrase core domain; Region: rve; pfam00665 394000324 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394000325 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 394000326 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 394000327 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394000328 Walker A motif; other site 394000329 ATP binding site [chemical binding]; other site 394000330 Walker B motif; other site 394000331 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 394000332 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 394000333 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 394000334 NAD(P) binding site [chemical binding]; other site 394000335 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394000336 Uncharacterized protein family (UPF0262); Region: UPF0262; pfam06793 394000337 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 394000338 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 394000339 NAD(P) binding site [chemical binding]; other site 394000340 catalytic residues [active] 394000341 hypothetical protein; Provisional; Region: PRK07482 394000342 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394000343 inhibitor-cofactor binding pocket; inhibition site 394000344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394000345 catalytic residue [active] 394000346 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 394000347 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 394000348 putative active site [active] 394000349 putative metal binding site [ion binding]; other site 394000350 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 394000351 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394000352 Walker A/P-loop; other site 394000353 ATP binding site [chemical binding]; other site 394000354 Q-loop/lid; other site 394000355 ABC transporter signature motif; other site 394000356 Walker B; other site 394000357 D-loop; other site 394000358 H-loop/switch region; other site 394000359 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394000360 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 394000361 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394000362 Walker A/P-loop; other site 394000363 ATP binding site [chemical binding]; other site 394000364 Q-loop/lid; other site 394000365 ABC transporter signature motif; other site 394000366 Walker B; other site 394000367 D-loop; other site 394000368 H-loop/switch region; other site 394000369 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 394000370 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 394000371 Encapsulating protein for peroxidase; Region: Linocin_M18; cl17804 394000372 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394000373 dimer interface [polypeptide binding]; other site 394000374 conserved gate region; other site 394000375 putative PBP binding loops; other site 394000376 ABC-ATPase subunit interface; other site 394000377 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 394000378 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394000379 dimer interface [polypeptide binding]; other site 394000380 conserved gate region; other site 394000381 putative PBP binding loops; other site 394000382 ABC-ATPase subunit interface; other site 394000383 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 394000384 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_16; cd08502 394000385 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 394000386 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 394000387 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 394000388 active site 394000389 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 394000390 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 394000391 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 394000392 active site 394000393 ectoine utilization protein EutC; Validated; Region: PRK08291 394000394 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 394000395 hypothetical protein; Provisional; Region: PRK06815 394000396 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 394000397 tetramer interface [polypeptide binding]; other site 394000398 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394000399 catalytic residue [active] 394000400 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 394000401 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like4; cd08014 394000402 metal binding site [ion binding]; metal-binding site 394000403 putative dimer interface [polypeptide binding]; other site 394000404 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 394000405 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 394000406 Walker A/P-loop; other site 394000407 ATP binding site [chemical binding]; other site 394000408 Q-loop/lid; other site 394000409 ABC transporter signature motif; other site 394000410 Walker B; other site 394000411 D-loop; other site 394000412 H-loop/switch region; other site 394000413 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 394000414 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394000415 dimer interface [polypeptide binding]; other site 394000416 conserved gate region; other site 394000417 putative PBP binding loops; other site 394000418 ABC-ATPase subunit interface; other site 394000419 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 394000420 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394000421 dimer interface [polypeptide binding]; other site 394000422 conserved gate region; other site 394000423 putative PBP binding loops; other site 394000424 ABC-ATPase subunit interface; other site 394000425 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 394000426 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394000427 substrate binding pocket [chemical binding]; other site 394000428 membrane-bound complex binding site; other site 394000429 hinge residues; other site 394000430 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 394000431 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394000432 putative DNA binding site [nucleotide binding]; other site 394000433 putative Zn2+ binding site [ion binding]; other site 394000434 AsnC family; Region: AsnC_trans_reg; pfam01037 394000435 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 394000436 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394000437 putative DNA binding site [nucleotide binding]; other site 394000438 putative Zn2+ binding site [ion binding]; other site 394000439 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394000440 Integrase core domain; Region: rve; pfam00665 394000441 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394000442 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 394000443 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 394000444 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394000445 Walker A motif; other site 394000446 ATP binding site [chemical binding]; other site 394000447 Walker B motif; other site 394000448 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 394000449 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 394000450 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 394000451 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394000452 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 394000453 AsnC family; Region: AsnC_trans_reg; pfam01037 394000454 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 394000455 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 394000456 homotrimer interaction site [polypeptide binding]; other site 394000457 putative active site [active] 394000458 succinic semialdehyde dehydrogenase; Region: PLN02278 394000459 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 394000460 tetramerization interface [polypeptide binding]; other site 394000461 NAD(P) binding site [chemical binding]; other site 394000462 catalytic residues [active] 394000463 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 394000464 dimerization interface [polypeptide binding]; other site 394000465 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 394000466 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394000467 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394000468 dimer interface [polypeptide binding]; other site 394000469 putative CheW interface [polypeptide binding]; other site 394000470 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 394000471 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 394000472 putative active site [active] 394000473 putative metal binding site [ion binding]; other site 394000474 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 394000475 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 394000476 ATP-grasp domain; Region: ATP-grasp_4; cl17255 394000477 Integrase core domain; Region: rve; pfam00665 394000478 transposase; Validated; Region: PRK08181 394000479 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394000480 Walker A motif; other site 394000481 ATP binding site [chemical binding]; other site 394000482 Winged helix-turn helix; Region: HTH_29; pfam13551 394000483 Homeodomain-like domain; Region: HTH_32; pfam13565 394000484 Winged helix-turn helix; Region: HTH_33; pfam13592 394000485 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 394000486 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394000487 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394000488 DDE superfamily endonuclease; Region: DDE_3; pfam13358 394000489 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 394000490 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 394000491 active site 394000492 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 394000493 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394000494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394000495 homodimer interface [polypeptide binding]; other site 394000496 catalytic residue [active] 394000497 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394000498 putative substrate translocation pore; other site 394000499 H+ Antiporter protein; Region: 2A0121; TIGR00900 394000500 Integrase core domain; Region: rve; pfam00665 394000501 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394000502 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 394000503 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394000504 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 394000505 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 394000506 Transposase; Region: HTH_Tnp_1; pfam01527 394000507 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 394000508 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 394000509 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; pfam02899 394000510 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 394000511 Int/Topo IB signature motif; other site 394000512 INT_SG4, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 4, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases for which not much biochemical characterization is available; Region: INT_SG4; cd01187 394000513 Int/Topo IB signature motif; other site 394000514 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 394000515 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 394000516 active site 394000517 Int/Topo IB signature motif; other site 394000518 DNA binding site [nucleotide binding] 394000519 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 394000520 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases; Region: INT_SG5; cd01190 394000521 Int/Topo IB signature motif; other site 394000522 INT_SG4, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 4, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases for which not much biochemical characterization is available; Region: INT_SG4; cd01187 394000523 Int/Topo IB signature motif; other site 394000524 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 394000525 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; pfam02899 394000526 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 394000527 Int/Topo IB signature motif; other site 394000528 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 394000529 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 394000530 Int/Topo IB signature motif; other site 394000531 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 394000532 Putative transposase; Region: Y2_Tnp; pfam04986 394000533 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 394000534 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 394000535 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 394000536 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 394000537 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 394000538 transcriptional regulator TraR; Provisional; Region: PRK13870 394000539 Autoinducer binding domain; Region: Autoind_bind; pfam03472 394000540 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394000541 DNA binding residues [nucleotide binding] 394000542 dimerization interface [polypeptide binding]; other site 394000543 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 394000544 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394000545 inhibitor-cofactor binding pocket; inhibition site 394000546 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394000547 catalytic residue [active] 394000548 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 394000549 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 394000550 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394000551 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 394000552 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394000553 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 394000554 active site 394000555 Prokaryotic E2 family B; Region: Prok-E2_B; pfam14461 394000556 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 394000557 ATP binding site [chemical binding]; other site 394000558 substrate interface [chemical binding]; other site 394000559 integrative and conjugative element protein, VC0181 family; Region: ICE_VC0181; TIGR02256 394000560 Transposase, Mutator family; Region: Transposase_mut; pfam00872 394000561 MULE transposase domain; Region: MULE; pfam10551 394000562 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394000563 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394000564 The C-terminal substrate binding of LysR-type symbiotic regulator SyrM, which activates expression of nodulation gene NodD3, contains the type 2 periplasmic binding fold; Region: PBP2_SyrM; cd08467 394000565 putative substrate binding pocket [chemical binding]; other site 394000566 putative dimerization interface [polypeptide binding]; other site 394000567 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 394000568 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 394000569 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 394000570 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394000571 Walker A motif; other site 394000572 ATP binding site [chemical binding]; other site 394000573 Walker B motif; other site 394000574 Helix-turn-helix domain; Region: HTH_28; pfam13518 394000575 Winged helix-turn helix; Region: HTH_29; pfam13551 394000576 Homeodomain-like domain; Region: HTH_32; pfam13565 394000577 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 394000578 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 394000579 catalytic residues [active] 394000580 catalytic nucleophile [active] 394000581 Recombinase; Region: Recombinase; pfam07508 394000582 Winged helix-turn helix; Region: HTH_29; pfam13551 394000583 Homeodomain-like domain; Region: HTH_32; pfam13565 394000584 Winged helix-turn helix; Region: HTH_33; pfam13592 394000585 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 394000586 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394000587 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394000588 DDE superfamily endonuclease; Region: DDE_3; pfam13358 394000589 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 394000590 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 394000591 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 394000592 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 394000593 active site 394000594 homotetramer interface [polypeptide binding]; other site 394000595 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394000596 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 394000597 active site 394000598 motif I; other site 394000599 motif II; other site 394000600 Predicted TIM-barrel enzyme, possibly a dioxygenase [General function prediction only]; Region: COG5564 394000601 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 394000602 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394000603 Walker A motif; other site 394000604 ATP binding site [chemical binding]; other site 394000605 Walker B motif; other site 394000606 arginine finger; other site 394000607 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 394000608 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394000609 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394000610 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394000611 Cupin domain; Region: Cupin_2; cl17218 394000612 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; pfam09370 394000613 Uncharacterized conserved protein [Function unknown]; Region: COG5441 394000614 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 394000615 TIM-barrel signal transduction protein; Region: TIM-br_sig_trns; cl15424 394000616 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 394000617 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394000618 Walker A/P-loop; other site 394000619 ATP binding site [chemical binding]; other site 394000620 Q-loop/lid; other site 394000621 ABC transporter signature motif; other site 394000622 Walker B; other site 394000623 D-loop; other site 394000624 H-loop/switch region; other site 394000625 TOBE domain; Region: TOBE_2; pfam08402 394000626 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394000627 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394000628 dimer interface [polypeptide binding]; other site 394000629 conserved gate region; other site 394000630 putative PBP binding loops; other site 394000631 ABC-ATPase subunit interface; other site 394000632 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394000633 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394000634 dimer interface [polypeptide binding]; other site 394000635 conserved gate region; other site 394000636 putative PBP binding loops; other site 394000637 ABC-ATPase subunit interface; other site 394000638 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394000639 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394000640 Helix-turn-helix domain; Region: HTH_28; pfam13518 394000641 Winged helix-turn helix; Region: HTH_29; pfam13551 394000642 LabA_like proteins; Region: LabA_like; cd06167 394000643 Uncharacterized conserved protein [Function unknown]; Region: COG1432 394000644 putative metal binding site [ion binding]; other site 394000645 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 394000646 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 394000647 Prokaryotic E2 family B; Region: Prok-E2_B; pfam14461 394000648 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 394000649 ATP binding site [chemical binding]; other site 394000650 substrate interface [chemical binding]; other site 394000651 hypothetical protein; Validated; Region: PRK08238 394000652 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 394000653 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 394000654 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394000655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394000656 NAD(P) binding site [chemical binding]; other site 394000657 active site 394000658 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 394000659 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 394000660 Small Multidrug Resistance protein; Region: Multi_Drug_Res; pfam00893 394000661 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394000662 3beta-hydroxysteroid dehydrogenases (3b-HSD)-like, extended (e) SDRs; Region: 3b-HSD-like_SDR_e; cd05241 394000663 putative NAD(P) binding site [chemical binding]; other site 394000664 active site 394000665 putative substrate binding site [chemical binding]; other site 394000666 Integrase core domain; Region: rve; pfam00665 394000667 transposase; Validated; Region: PRK08181 394000668 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394000669 Walker A motif; other site 394000670 ATP binding site [chemical binding]; other site 394000671 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394000672 S-adenosylmethionine binding site [chemical binding]; other site 394000673 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 394000674 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 394000675 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 394000676 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 394000677 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 394000678 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394000679 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 394000680 dimerization interface [polypeptide binding]; other site 394000681 substrate binding pocket [chemical binding]; other site 394000682 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394000683 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394000684 NAD(P) binding site [chemical binding]; other site 394000685 active site 394000686 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 394000687 TPP-binding site [chemical binding]; other site 394000688 dimer interface [polypeptide binding]; other site 394000689 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 394000690 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 394000691 PYR/PP interface [polypeptide binding]; other site 394000692 dimer interface [polypeptide binding]; other site 394000693 TPP binding site [chemical binding]; other site 394000694 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 394000695 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 394000696 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 394000697 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 394000698 DctM-like transporters; Region: DctM; pfam06808 394000699 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 394000700 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394000701 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394000702 Walker A/P-loop; other site 394000703 ATP binding site [chemical binding]; other site 394000704 Q-loop/lid; other site 394000705 ABC transporter signature motif; other site 394000706 Walker B; other site 394000707 D-loop; other site 394000708 H-loop/switch region; other site 394000709 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394000710 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394000711 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394000712 TM-ABC transporter signature motif; other site 394000713 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 394000714 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 394000715 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 394000716 Amidohydrolase; Region: Amidohydro_2; pfam04909 394000717 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394000718 non-specific DNA binding site [nucleotide binding]; other site 394000719 salt bridge; other site 394000720 sequence-specific DNA binding site [nucleotide binding]; other site 394000721 HipA N-terminal domain; Region: Couple_hipA; pfam13657 394000722 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 394000723 HipA-like N-terminal domain; Region: HipA_N; pfam07805 394000724 HipA-like C-terminal domain; Region: HipA_C; pfam07804 394000725 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 394000726 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 394000727 multiple promoter invertase; Provisional; Region: mpi; PRK13413 394000728 catalytic residues [active] 394000729 catalytic nucleophile [active] 394000730 Presynaptic Site I dimer interface [polypeptide binding]; other site 394000731 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 394000732 Synaptic Flat tetramer interface [polypeptide binding]; other site 394000733 Synaptic Site I dimer interface [polypeptide binding]; other site 394000734 DNA binding site [nucleotide binding] 394000735 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 394000736 DNA-binding interface [nucleotide binding]; DNA binding site 394000737 Vesicle coat complex COPI, gamma subunit [Intracellular trafficking and secretion]; Region: SEC21; COG5240 394000738 YopJ Serine/Threonine acetyltransferase; Region: YopJ; pfam03421 394000739 PAS fold; Region: PAS_4; pfam08448 394000740 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394000741 putative active site [active] 394000742 heme pocket [chemical binding]; other site 394000743 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394000744 PAS fold; Region: PAS_3; pfam08447 394000745 putative active site [active] 394000746 heme pocket [chemical binding]; other site 394000747 PAS domain S-box; Region: sensory_box; TIGR00229 394000748 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394000749 putative active site [active] 394000750 heme pocket [chemical binding]; other site 394000751 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394000752 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394000753 metal binding site [ion binding]; metal-binding site 394000754 active site 394000755 I-site; other site 394000756 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394000757 Fic/DOC family; Region: Fic; cl00960 394000758 TIR domain; Region: TIR_2; pfam13676 394000759 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 394000760 Cytochrome P450; Region: p450; cl12078 394000761 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 394000762 Cytochrome P450; Region: p450; cl12078 394000763 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 394000764 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 394000765 classical (c) SDR, subgroup 12; Region: SDR_c12; cd08944 394000766 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394000767 homodimer interface [polypeptide binding]; other site 394000768 putative NAD(P) binding site [chemical binding]; other site 394000769 active site 394000770 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 394000771 Cytochrome P450; Region: p450; cl12078 394000772 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 394000773 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 394000774 substrate binding pocket [chemical binding]; other site 394000775 chain length determination region; other site 394000776 substrate-Mg2+ binding site; other site 394000777 catalytic residues [active] 394000778 aspartate-rich region 1; other site 394000779 active site lid residues [active] 394000780 aspartate-rich region 2; other site 394000781 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cd00688 394000782 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 394000783 substrate binding pocket [chemical binding]; other site 394000784 substrate-Mg2+ binding site; other site 394000785 aspartate-rich region 1; other site 394000786 aspartate-rich region 2; other site 394000787 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 394000788 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 394000789 Predicted transcriptional regulator [Transcription]; Region: COG3905 394000790 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 394000791 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394000792 Walker A motif; other site 394000793 ATP binding site [chemical binding]; other site 394000794 Walker B motif; other site 394000795 arginine finger; other site 394000796 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 394000797 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394000798 putative DNA binding site [nucleotide binding]; other site 394000799 putative Zn2+ binding site [ion binding]; other site 394000800 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394000801 Integrase core domain; Region: rve; pfam00665 394000802 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394000803 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 394000804 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 394000805 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394000806 Walker A motif; other site 394000807 ATP binding site [chemical binding]; other site 394000808 Walker B motif; other site 394000809 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 394000810 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 394000811 Response regulator receiver domain; Region: Response_reg; pfam00072 394000812 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394000813 active site 394000814 phosphorylation site [posttranslational modification] 394000815 intermolecular recognition site; other site 394000816 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 394000817 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394000818 cheY-homologous receiver domain; Region: REC; smart00448 394000819 active site 394000820 phosphorylation site [posttranslational modification] 394000821 intermolecular recognition site; other site 394000822 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 394000823 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 394000824 oligomeric interface; other site 394000825 putative active site [active] 394000826 homodimer interface [polypeptide binding]; other site 394000827 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 394000828 Protein of Unknown function (DUF2604); Region: DUF2604; pfam10790 394000829 Predicted metal binding domain; Region: Metal_CEHH; pfam14455 394000830 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 394000831 Prokaryotic E2 family C; Region: Prok-E2_C; pfam14459 394000832 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 394000833 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 394000834 ATP binding site [chemical binding]; other site 394000835 substrate interface [chemical binding]; other site 394000836 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 394000837 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 394000838 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 394000839 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 394000840 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 394000841 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 394000842 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 394000843 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 394000844 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 394000845 Transposase; Region: HTH_Tnp_1; pfam01527 394000846 Integrase core domain; Region: rve; pfam00665 394000847 transposase; Validated; Region: PRK08181 394000848 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394000849 Walker A motif; other site 394000850 ATP binding site [chemical binding]; other site 394000851 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cd08150 394000852 heme binding pocket [chemical binding]; other site 394000853 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 394000854 heme binding pocket [chemical binding]; other site 394000855 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 394000856 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 394000857 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 394000858 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 394000859 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 394000860 Transcriptional regulator; Region: Rrf2; pfam02082 394000861 Predicted transcriptional regulator [Transcription]; Region: COG1959 394000862 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 394000863 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 394000864 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 394000865 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 394000866 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 394000867 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 394000868 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 394000869 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 394000870 Transposase; Region: HTH_Tnp_1; pfam01527 394000871 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394000872 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394000873 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394000874 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 394000875 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394000876 FeS/SAM binding site; other site 394000877 Nodulation protein A (NodA); Region: NodA; pfam02474 394000878 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 394000879 chitooligosaccharide deacetylase NodB; Region: nodulat_NodB; TIGR04243 394000880 chitooligosaccharide synthase NodC; Region: nodulat_NodC; TIGR04242 394000881 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 394000882 DXD motif; other site 394000883 nodulation factor exporter subunit NodI; Provisional; Region: PRK13536 394000884 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394000885 Walker A/P-loop; other site 394000886 ATP binding site [chemical binding]; other site 394000887 Q-loop/lid; other site 394000888 ABC transporter signature motif; other site 394000889 Walker B; other site 394000890 D-loop; other site 394000891 H-loop/switch region; other site 394000892 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 394000893 ABC-2 type transporter; Region: ABC2_membrane; cl17235 394000894 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 394000895 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 394000896 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 394000897 calcium/proton exchanger; Region: caca2; TIGR00846 394000898 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 394000899 Rhamnan synthesis protein F; Region: RgpF; pfam05045 394000900 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 394000901 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 394000902 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 394000903 Walker A/P-loop; other site 394000904 ATP binding site [chemical binding]; other site 394000905 Q-loop/lid; other site 394000906 ABC transporter signature motif; other site 394000907 Walker B; other site 394000908 D-loop; other site 394000909 H-loop/switch region; other site 394000910 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 394000911 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 394000912 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 394000913 Methyltransferase domain; Region: Methyltransf_24; pfam13578 394000914 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 394000915 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 394000916 Probable Catalytic site; other site 394000917 metal-binding site 394000918 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 394000919 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 394000920 Probable Catalytic site; other site 394000921 metal-binding site 394000922 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 394000923 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 394000924 substrate binding site; other site 394000925 tetramer interface; other site 394000926 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 394000927 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 394000928 NADP binding site [chemical binding]; other site 394000929 active site 394000930 putative substrate binding site [chemical binding]; other site 394000931 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 394000932 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 394000933 NAD binding site [chemical binding]; other site 394000934 substrate binding site [chemical binding]; other site 394000935 homodimer interface [polypeptide binding]; other site 394000936 active site 394000937 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 394000938 Int/Topo IB signature motif; other site 394000939 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 394000940 Leucine rich repeat; Region: LRR_8; pfam13855 394000941 Transcriptional regulators [Transcription]; Region: MarR; COG1846 394000942 MarR family; Region: MarR_2; pfam12802 394000943 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 394000944 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 394000945 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 394000946 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 394000947 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 394000948 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394000949 Walker A/P-loop; other site 394000950 ATP binding site [chemical binding]; other site 394000951 Q-loop/lid; other site 394000952 ABC transporter signature motif; other site 394000953 Walker B; other site 394000954 D-loop; other site 394000955 H-loop/switch region; other site 394000956 TOBE domain; Region: TOBE_2; pfam08402 394000957 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 394000958 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394000959 dimer interface [polypeptide binding]; other site 394000960 conserved gate region; other site 394000961 putative PBP binding loops; other site 394000962 ABC-ATPase subunit interface; other site 394000963 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394000964 dimer interface [polypeptide binding]; other site 394000965 conserved gate region; other site 394000966 putative PBP binding loops; other site 394000967 ABC-ATPase subunit interface; other site 394000968 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 394000969 AP (apurinic/apyrimidinic) site pocket; other site 394000970 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 394000971 DNA interaction; other site 394000972 Metal-binding active site; metal-binding site 394000973 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 394000974 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 394000975 active site 394000976 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394000977 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394000978 Porin subfamily; Region: Porin_2; pfam02530 394000979 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 394000980 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 394000981 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 394000982 active site 394000983 substrate binding site [chemical binding]; other site 394000984 Mg2+ binding site [ion binding]; other site 394000985 HAMP domain; Region: HAMP; pfam00672 394000986 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394000987 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394000988 dimer interface [polypeptide binding]; other site 394000989 putative CheW interface [polypeptide binding]; other site 394000990 Protein of unknown function (DUF433); Region: DUF433; pfam04255 394000991 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 394000992 classical (c) SDRs; Region: SDR_c; cd05233 394000993 NAD(P) binding site [chemical binding]; other site 394000994 active site 394000995 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 394000996 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394000997 NAD(P) binding site [chemical binding]; other site 394000998 active site 394000999 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 394001000 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 394001001 Acyltransferase family; Region: Acyl_transf_3; pfam01757 394001002 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 394001003 active site 394001004 DNA binding site [nucleotide binding] 394001005 Int/Topo IB signature motif; other site 394001006 Glycerophosphodiester phosphodiesterase domain of Agrobacterium tumefaciens and similar proteins; Region: GDPD_AtGDE_like; cd08566 394001007 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 394001008 putative active site [active] 394001009 catalytic site [active] 394001010 putative metal binding site [ion binding]; other site 394001011 oligomer interface [polypeptide binding]; other site 394001012 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 394001013 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 394001014 Uncharacterized conserved protein [Function unknown]; Region: COG5489 394001015 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 394001016 WGR domain of molybdate metabolism regulator and related proteins; Region: WGR_MMR_like; cd07996 394001017 conjugal transfer coupling protein TraG; Provisional; Region: PRK13822 394001018 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 394001019 Walker A motif; other site 394001020 ATP binding site [chemical binding]; other site 394001021 Walker B motif; other site 394001022 conjugal transfer protein TraD; Provisional; Region: PRK13847 394001023 conjugal transfer protein TraC; Provisional; Region: PRK13848 394001024 Dtr system oriT relaxase; Provisional; Region: PRK13826 394001025 MobA/MobL family; Region: MobA_MobL; pfam03389 394001026 AAA domain; Region: AAA_30; pfam13604 394001027 Family description; Region: UvrD_C_2; pfam13538 394001028 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 394001029 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 394001030 conjugal transfer protein TraB; Provisional; Region: PRK13825 394001031 active site 394001032 catalytic triad [active] 394001033 dimer interface [polypeptide binding]; other site 394001034 conjugal transfer protein TraH; Provisional; Region: PRK13843 394001035 HipA N-terminal domain; Region: Couple_hipA; pfam13657 394001036 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 394001037 HipA-like N-terminal domain; Region: HipA_N; pfam07805 394001038 HipA-like C-terminal domain; Region: HipA_C; pfam07804 394001039 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394001040 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394001041 non-specific DNA binding site [nucleotide binding]; other site 394001042 salt bridge; other site 394001043 sequence-specific DNA binding site [nucleotide binding]; other site 394001044 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394001045 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394001046 non-specific DNA binding site [nucleotide binding]; other site 394001047 salt bridge; other site 394001048 sequence-specific DNA binding site [nucleotide binding]; other site 394001049 Prokaryotic Transcriptional repressor TraM; Region: Prok-TraM; pfam09228 394001050 transcriptional regulator TraR; Provisional; Region: PRK13870 394001051 Autoinducer binding domain; Region: Autoind_bind; pfam03472 394001052 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394001053 DNA binding residues [nucleotide binding] 394001054 dimerization interface [polypeptide binding]; other site 394001055 conjugal transfer protein TrbI; Provisional; Region: PRK13831 394001056 conjugal transfer protein TrbH; Provisional; Region: PRK13835 394001057 Conjugal transfer protein TrbH; Region: TrbH; pfam07283 394001058 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 394001059 VirB7 interaction site; other site 394001060 conjugal transfer protein TrbF; Provisional; Region: PRK13836 394001061 conjugal transfer protein TrbL; Provisional; Region: PRK13841 394001062 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 394001063 Protein of unknown function (DUF2749); Region: DUF2749; pfam10907 394001064 conjugal transfer protein TrbJ; Provisional; Region: PRK13842 394001065 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 394001066 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 394001067 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394001068 AAA-like domain; Region: AAA_10; pfam12846 394001069 Walker A/P-loop; other site 394001070 ATP binding site [chemical binding]; other site 394001071 conjugal transfer protein TrbE; Provisional; Region: PRK13830 394001072 conjugal transfer protein TrbD; Provisional; Region: PRK13823 394001073 conjugal transfer protein TrbC; Provisional; Region: PRK13871 394001074 conjugal transfer protein TrbB; Provisional; Region: PRK13833 394001075 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 394001076 ATP binding site [chemical binding]; other site 394001077 Walker A motif; other site 394001078 hexamer interface [polypeptide binding]; other site 394001079 Walker B motif; other site 394001080 putative autoinducer synthesis protein; Provisional; Region: PRK13834 394001081 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 394001082 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 394001083 P-loop; other site 394001084 Magnesium ion binding site [ion binding]; other site 394001085 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 394001086 Magnesium ion binding site [ion binding]; other site 394001087 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 394001088 ParB-like nuclease domain; Region: ParB; smart00470 394001089 replication initiation protein RepC; Provisional; Region: PRK13824 394001090 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394001091 putative DNA binding site [nucleotide binding]; other site 394001092 putative Zn2+ binding site [ion binding]; other site 394001093 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 394001094 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 394001095 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394001096 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394001097 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394001098 NAD(P) binding site [chemical binding]; other site 394001099 active site 394001100 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 394001101 HTH DNA binding domain; Region: HTH_13; pfam11972 394001102 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 394001103 EamA-like transporter family; Region: EamA; pfam00892 394001104 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 394001105 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394001106 DNA-binding site [nucleotide binding]; DNA binding site 394001107 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394001108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394001109 homodimer interface [polypeptide binding]; other site 394001110 catalytic residue [active] 394001111 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 394001112 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394001113 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394001114 dimerization interface [polypeptide binding]; other site 394001115 Lysine efflux permease [General function prediction only]; Region: COG1279 394001116 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 394001117 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 394001118 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 394001119 inhibitor site; inhibition site 394001120 active site 394001121 dimer interface [polypeptide binding]; other site 394001122 catalytic residue [active] 394001123 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 394001124 Mechanosensitive ion channel; Region: MS_channel; pfam00924 394001125 Cupin domain; Region: Cupin_2; cl17218 394001126 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 394001127 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 394001128 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 394001129 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 394001130 active site 394001131 metal binding site [ion binding]; metal-binding site 394001132 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 394001133 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 394001134 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 394001135 shikimate binding site; other site 394001136 NAD(P) binding site [chemical binding]; other site 394001137 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 394001138 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 394001139 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 394001140 DctM-like transporters; Region: DctM; pfam06808 394001141 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 394001142 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394001143 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394001144 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 394001145 nucleoside/Zn binding site; other site 394001146 dimer interface [polypeptide binding]; other site 394001147 catalytic motif [active] 394001148 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 394001149 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 394001150 tetramer interface [polypeptide binding]; other site 394001151 active site 394001152 Mg2+/Mn2+ binding site [ion binding]; other site 394001153 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 394001154 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394001155 putative substrate translocation pore; other site 394001156 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394001157 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 394001158 putative DNA binding site [nucleotide binding]; other site 394001159 putative Zn2+ binding site [ion binding]; other site 394001160 AsnC family; Region: AsnC_trans_reg; pfam01037 394001161 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 394001162 oligomeric interface; other site 394001163 putative active site [active] 394001164 homodimer interface [polypeptide binding]; other site 394001165 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394001166 cyclase homology domain; Region: CHD; cd07302 394001167 nucleotidyl binding site; other site 394001168 metal binding site [ion binding]; metal-binding site 394001169 dimer interface [polypeptide binding]; other site 394001170 Predicted integral membrane protein [Function unknown]; Region: COG5616 394001171 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394001172 binding surface 394001173 TPR motif; other site 394001174 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 394001175 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 394001176 recombination regulator RecX; Reviewed; Region: recX; PRK00117 394001177 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 394001178 apolar tunnel; other site 394001179 heme binding site [chemical binding]; other site 394001180 dimerization interface [polypeptide binding]; other site 394001181 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 394001182 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 394001183 NGR_b00370; temperature sensor, ROSE, RF00435 394001184 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 394001185 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 394001186 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 394001187 RNA binding surface [nucleotide binding]; other site 394001188 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 394001189 active site 394001190 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 394001191 Protein of unknown function (DUF2950); Region: DUF2950; pfam11453 394001192 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 394001193 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 394001194 Ion channel; Region: Ion_trans_2; pfam07885 394001195 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 394001196 DNA binding site [nucleotide binding] 394001197 dimer interface [polypeptide binding]; other site 394001198 active site 394001199 Int/Topo IB signature motif; other site 394001200 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 394001201 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 394001202 putative active site [active] 394001203 homotetrameric interface [polypeptide binding]; other site 394001204 metal binding site [ion binding]; metal-binding site 394001205 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 394001206 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 394001207 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 394001208 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 394001209 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 394001210 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 394001211 putative active site [active] 394001212 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 394001213 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 394001214 BON domain; Region: BON; pfam04972 394001215 BON domain; Region: BON; pfam04972 394001216 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 394001217 PRC-barrel domain; Region: PRC; pfam05239 394001218 Thioredoxin; Region: Thioredoxin_4; pfam13462 394001219 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 394001220 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 394001221 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 394001222 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 394001223 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 394001224 BON domain; Region: BON; pfam04972 394001225 BON domain; Region: BON; pfam04972 394001226 BON domain; Region: BON; pfam04972 394001227 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394001228 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394001229 active site 394001230 catalytic tetrad [active] 394001231 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 394001232 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 394001233 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 394001234 TrkA-N domain; Region: TrkA_N; pfam02254 394001235 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 394001236 BON domain; Region: BON; pfam04972 394001237 BON domain; Region: BON; pfam04972 394001238 BON domain; Region: BON; pfam04972 394001239 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 394001240 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 394001241 putative dimer interface [polypeptide binding]; other site 394001242 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 394001243 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 394001244 putative dimer interface [polypeptide binding]; other site 394001245 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 394001246 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 394001247 putative dimer interface [polypeptide binding]; other site 394001248 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 394001249 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 394001250 HSP70 interaction site [polypeptide binding]; other site 394001251 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 394001252 substrate binding site [polypeptide binding]; other site 394001253 dimer interface [polypeptide binding]; other site 394001254 GrpE; Region: GrpE; pfam01025 394001255 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 394001256 dimer interface [polypeptide binding]; other site 394001257 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 394001258 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 394001259 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 394001260 nucleotide binding site [chemical binding]; other site 394001261 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 394001262 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 394001263 ligand binding site [chemical binding]; other site 394001264 flexible hinge region; other site 394001265 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 394001266 putative switch regulator; other site 394001267 non-specific DNA interactions [nucleotide binding]; other site 394001268 DNA binding site [nucleotide binding] 394001269 sequence specific DNA binding site [nucleotide binding]; other site 394001270 putative cAMP binding site [chemical binding]; other site 394001271 Cytochrome c553 [Energy production and conversion]; Region: COG2863 394001272 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 394001273 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 394001274 Phosphate-starvation-inducible E; Region: PsiE; cl01264 394001275 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 394001276 PAS domain; Region: PAS_9; pfam13426 394001277 response regulator FixJ; Provisional; Region: fixJ; PRK09390 394001278 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394001279 DNA binding residues [nucleotide binding] 394001280 dimerization interface [polypeptide binding]; other site 394001281 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 394001282 Ligand Binding Site [chemical binding]; other site 394001283 Helix-turn-helix domain; Region: HTH_28; pfam13518 394001284 Winged helix-turn helix; Region: HTH_29; pfam13551 394001285 Homeodomain-like domain; Region: HTH_32; pfam13565 394001286 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 394001287 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 394001288 catalytic residues [active] 394001289 catalytic nucleophile [active] 394001290 Recombinase; Region: Recombinase; pfam07508 394001291 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 394001292 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 394001293 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 394001294 active site 394001295 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 394001296 Clp amino terminal domain; Region: Clp_N; pfam02861 394001297 Clp amino terminal domain; Region: Clp_N; pfam02861 394001298 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394001299 Walker A motif; other site 394001300 ATP binding site [chemical binding]; other site 394001301 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 394001302 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 394001303 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394001304 Walker A motif; other site 394001305 ATP binding site [chemical binding]; other site 394001306 Walker B motif; other site 394001307 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 394001308 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394001309 putative DNA binding site [nucleotide binding]; other site 394001310 putative Zn2+ binding site [ion binding]; other site 394001311 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394001312 Integrase core domain; Region: rve; pfam00665 394001313 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394001314 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 394001315 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394001316 Walker B motif; other site 394001317 arginine finger; other site 394001318 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394001319 Walker A motif; other site 394001320 ATP binding site [chemical binding]; other site 394001321 Walker B motif; other site 394001322 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 394001323 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 394001324 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 394001325 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 394001326 putative dimer interface [polypeptide binding]; other site 394001327 NGR_b01020; temperature sensor, ROSE, RF00435 394001328 Transcriptional regulators [Transcription]; Region: FadR; COG2186 394001329 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394001330 DNA-binding site [nucleotide binding]; DNA binding site 394001331 FCD domain; Region: FCD; pfam07729 394001332 Domain of unknown function (DUF336); Region: DUF336; pfam03928 394001333 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 394001334 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 394001335 ligand binding site [chemical binding]; other site 394001336 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394001337 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394001338 Walker A/P-loop; other site 394001339 ATP binding site [chemical binding]; other site 394001340 Q-loop/lid; other site 394001341 ABC transporter signature motif; other site 394001342 Walker B; other site 394001343 D-loop; other site 394001344 H-loop/switch region; other site 394001345 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394001346 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394001347 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394001348 TM-ABC transporter signature motif; other site 394001349 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394001350 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394001351 TM-ABC transporter signature motif; other site 394001352 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 394001353 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 394001354 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 394001355 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 394001356 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 394001357 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 394001358 short chain dehydrogenase; Provisional; Region: PRK07326 394001359 classical (c) SDRs; Region: SDR_c; cd05233 394001360 NAD(P) binding site [chemical binding]; other site 394001361 active site 394001362 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 394001363 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 394001364 substrate binding site [chemical binding]; other site 394001365 ATP binding site [chemical binding]; other site 394001366 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; pfam08013 394001367 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_4; cd07582 394001368 Predicted amidohydrolase [General function prediction only]; Region: COG0388 394001369 putative active site [active] 394001370 catalytic triad [active] 394001371 putative dimer interface [polypeptide binding]; other site 394001372 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 394001373 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 394001374 putative NAD(P) binding site [chemical binding]; other site 394001375 putative substrate binding site [chemical binding]; other site 394001376 catalytic Zn binding site [ion binding]; other site 394001377 structural Zn binding site [ion binding]; other site 394001378 dimer interface [polypeptide binding]; other site 394001379 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 394001380 Bacterial transcriptional regulator; Region: IclR; pfam01614 394001381 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 394001382 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 394001383 dimer interface [polypeptide binding]; other site 394001384 active site 394001385 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 394001386 dimer interface [polypeptide binding]; other site 394001387 active site 394001388 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 394001389 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394001390 Walker A/P-loop; other site 394001391 ATP binding site [chemical binding]; other site 394001392 Q-loop/lid; other site 394001393 ABC transporter signature motif; other site 394001394 Walker B; other site 394001395 D-loop; other site 394001396 H-loop/switch region; other site 394001397 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 394001398 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 394001399 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 394001400 catalytic residue [active] 394001401 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 394001402 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 394001403 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 394001404 active site 394001405 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 394001406 TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria; Region: PBP1_TorT-like; cd06306 394001407 putative ligand binding site [chemical binding]; other site 394001408 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394001409 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394001410 Walker A/P-loop; other site 394001411 ATP binding site [chemical binding]; other site 394001412 Q-loop/lid; other site 394001413 ABC transporter signature motif; other site 394001414 Walker B; other site 394001415 D-loop; other site 394001416 H-loop/switch region; other site 394001417 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394001418 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394001419 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394001420 TM-ABC transporter signature motif; other site 394001421 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 394001422 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 394001423 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 394001424 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394001425 putative DNA binding site [nucleotide binding]; other site 394001426 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 394001427 putative Zn2+ binding site [ion binding]; other site 394001428 AsnC family; Region: AsnC_trans_reg; pfam01037 394001429 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 394001430 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 394001431 AsnC family; Region: AsnC_trans_reg; pfam01037 394001432 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 394001433 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 394001434 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 394001435 potential frameshift: common BLAST hit: gi|150376868|ref|YP_001313464.1| molybdopterin dehydrogenase FAD-binding 394001436 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 394001437 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 394001438 potential frameshift: common BLAST hit: gi|16264661|ref|NP_437453.1| iron-sulfur-binding protein 394001439 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 394001440 aldehyde oxidoreductase 2Fe-2S subunit; Provisional; Region: PRK11433 394001441 potential frameshift: common BLAST hit: gi|150376866|ref|YP_001313462.1| helix-turn-helix domain-containing protein 394001442 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394001443 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394001444 oxidoreductase; Provisional; Region: PRK12742 394001445 classical (c) SDRs; Region: SDR_c; cd05233 394001446 NAD(P) binding site [chemical binding]; other site 394001447 active site 394001448 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394001449 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394001450 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 394001451 putative effector binding pocket; other site 394001452 dimerization interface [polypeptide binding]; other site 394001453 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394001454 cyclase homology domain; Region: CHD; cd07302 394001455 nucleotidyl binding site; other site 394001456 metal binding site [ion binding]; metal-binding site 394001457 dimer interface [polypeptide binding]; other site 394001458 Predicted integral membrane protein [Function unknown]; Region: COG5616 394001459 TPR repeat; Region: TPR_11; pfam13414 394001460 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394001461 TPR motif; other site 394001462 binding surface 394001463 Tetratricopeptide repeat; Region: TPR_16; pfam13432 394001464 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394001465 binding surface 394001466 Tetratricopeptide repeat; Region: TPR_16; pfam13432 394001467 TPR motif; other site 394001468 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 394001469 PAS domain S-box; Region: sensory_box; TIGR00229 394001470 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394001471 putative active site [active] 394001472 heme pocket [chemical binding]; other site 394001473 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394001474 PAS fold; Region: PAS_3; pfam08447 394001475 putative active site [active] 394001476 heme pocket [chemical binding]; other site 394001477 PAS domain S-box; Region: sensory_box; TIGR00229 394001478 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394001479 putative active site [active] 394001480 heme pocket [chemical binding]; other site 394001481 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394001482 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394001483 metal binding site [ion binding]; metal-binding site 394001484 active site 394001485 I-site; other site 394001486 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394001487 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394001488 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394001489 non-specific DNA binding site [nucleotide binding]; other site 394001490 salt bridge; other site 394001491 sequence-specific DNA binding site [nucleotide binding]; other site 394001492 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394001493 Integrase core domain; Region: rve; pfam00665 394001494 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 394001495 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 394001496 catalytic residues [active] 394001497 catalytic nucleophile [active] 394001498 Recombinase; Region: Recombinase; pfam07508 394001499 Helix-turn-helix domain; Region: HTH_28; pfam13518 394001500 Winged helix-turn helix; Region: HTH_29; pfam13551 394001501 Homeodomain-like domain; Region: HTH_32; pfam13565 394001502 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394001503 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 394001504 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 394001505 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394001506 Walker A motif; other site 394001507 ATP binding site [chemical binding]; other site 394001508 Walker B motif; other site 394001509 Replication protein C N-terminal domain; Region: RP-C; pfam03428 394001510 MarR family; Region: MarR_2; cl17246 394001511 5-oxoprolinase; Region: PLN02666 394001512 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 394001513 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 394001514 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 394001515 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 394001516 active site 394001517 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 394001518 DinB family; Region: DinB; cl17821 394001519 DinB superfamily; Region: DinB_2; pfam12867 394001520 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394001521 cyclase homology domain; Region: CHD; cd07302 394001522 nucleotidyl binding site; other site 394001523 metal binding site [ion binding]; metal-binding site 394001524 dimer interface [polypeptide binding]; other site 394001525 Predicted integral membrane protein [Function unknown]; Region: COG5616 394001526 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 394001527 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394001528 TPR motif; other site 394001529 binding surface 394001530 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394001531 TPR motif; other site 394001532 binding surface 394001533 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394001534 binding surface 394001535 TPR motif; other site 394001536 hypothetical protein; Validated; Region: PRK06201 394001537 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 394001538 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 394001539 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394001540 substrate binding pocket [chemical binding]; other site 394001541 membrane-bound complex binding site; other site 394001542 hinge residues; other site 394001543 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 394001544 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 394001545 Walker A/P-loop; other site 394001546 ATP binding site [chemical binding]; other site 394001547 Q-loop/lid; other site 394001548 ABC transporter signature motif; other site 394001549 Walker B; other site 394001550 D-loop; other site 394001551 H-loop/switch region; other site 394001552 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394001553 dimer interface [polypeptide binding]; other site 394001554 conserved gate region; other site 394001555 putative PBP binding loops; other site 394001556 ABC-ATPase subunit interface; other site 394001557 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 394001558 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394001559 dimer interface [polypeptide binding]; other site 394001560 conserved gate region; other site 394001561 putative PBP binding loops; other site 394001562 ABC-ATPase subunit interface; other site 394001563 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 394001564 classical (c) SDRs; Region: SDR_c; cd05233 394001565 NAD(P) binding site [chemical binding]; other site 394001566 active site 394001567 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 394001568 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394001569 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 394001570 putative dimerization interface [polypeptide binding]; other site 394001571 aspartate aminotransferase; Provisional; Region: PRK05764 394001572 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394001573 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394001574 homodimer interface [polypeptide binding]; other site 394001575 catalytic residue [active] 394001576 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 394001577 putative active site [active] 394001578 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 394001579 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 394001580 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 394001581 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394001582 lipoyl-biotinyl attachment site [posttranslational modification]; other site 394001583 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 394001584 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 394001585 ATP-grasp domain; Region: ATP-grasp_4; cl17255 394001586 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 394001587 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 394001588 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 394001589 carboxyltransferase (CT) interaction site; other site 394001590 biotinylation site [posttranslational modification]; other site 394001591 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 394001592 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 394001593 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 394001594 Predicted flavoprotein [General function prediction only]; Region: COG0431 394001595 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 394001596 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 394001597 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394001598 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394001599 dimerization interface [polypeptide binding]; other site 394001600 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 394001601 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 394001602 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 394001603 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 394001604 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 394001605 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 394001606 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 394001607 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 394001608 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 394001609 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 394001610 Walker A/P-loop; other site 394001611 ATP binding site [chemical binding]; other site 394001612 Q-loop/lid; other site 394001613 ABC transporter signature motif; other site 394001614 Walker B; other site 394001615 D-loop; other site 394001616 H-loop/switch region; other site 394001617 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 394001618 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394001619 dimer interface [polypeptide binding]; other site 394001620 conserved gate region; other site 394001621 putative PBP binding loops; other site 394001622 ABC-ATPase subunit interface; other site 394001623 Isochorismatase family; Region: Isochorismatase; pfam00857 394001624 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 394001625 catalytic triad [active] 394001626 conserved cis-peptide bond; other site 394001627 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 394001628 Putative ammonia monooxygenase; Region: AmoA; pfam05145 394001629 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 394001630 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 394001631 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 394001632 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394001633 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394001634 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 394001635 substrate binding pocket [chemical binding]; other site 394001636 dimerization interface [polypeptide binding]; other site 394001637 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 394001638 Cupin; Region: Cupin_6; pfam12852 394001639 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394001640 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394001641 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 394001642 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394001643 putative substrate translocation pore; other site 394001644 acetolactate synthase catalytic subunit; Validated; Region: PRK08327 394001645 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 394001646 PYR/PP interface [polypeptide binding]; other site 394001647 dimer interface [polypeptide binding]; other site 394001648 TPP binding site [chemical binding]; other site 394001649 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 394001650 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 394001651 TPP-binding site [chemical binding]; other site 394001652 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 394001653 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 394001654 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 394001655 Flavoprotein; Region: Flavoprotein; pfam02441 394001656 Transcriptional regulators [Transcription]; Region: GntR; COG1802 394001657 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394001658 DNA-binding site [nucleotide binding]; DNA binding site 394001659 FCD domain; Region: FCD; pfam07729 394001660 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 394001661 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 394001662 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 394001663 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 394001664 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 394001665 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 394001666 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 394001667 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 394001668 NMT1/THI5 like; Region: NMT1; pfam09084 394001669 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 394001670 putative hydrophobic ligand binding site [chemical binding]; other site 394001671 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 394001672 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 394001673 catalytic loop [active] 394001674 iron binding site [ion binding]; other site 394001675 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 394001676 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 394001677 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 394001678 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 394001679 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 394001680 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 394001681 XdhC Rossmann domain; Region: XdhC_C; pfam13478 394001682 Fumarase C-terminus; Region: Fumerase_C; cl00795 394001683 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 394001684 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 394001685 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 394001686 catalytic site [active] 394001687 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 394001688 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394001689 Walker A/P-loop; other site 394001690 ATP binding site [chemical binding]; other site 394001691 Q-loop/lid; other site 394001692 ABC transporter signature motif; other site 394001693 Walker B; other site 394001694 D-loop; other site 394001695 H-loop/switch region; other site 394001696 TOBE domain; Region: TOBE_2; pfam08402 394001697 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394001698 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394001699 dimer interface [polypeptide binding]; other site 394001700 conserved gate region; other site 394001701 putative PBP binding loops; other site 394001702 ABC-ATPase subunit interface; other site 394001703 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394001704 dimer interface [polypeptide binding]; other site 394001705 conserved gate region; other site 394001706 putative PBP binding loops; other site 394001707 ABC-ATPase subunit interface; other site 394001708 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394001709 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394001710 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394001711 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394001712 DNA binding site [nucleotide binding] 394001713 domain linker motif; other site 394001714 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 394001715 putative dimerization interface [polypeptide binding]; other site 394001716 putative ligand binding site [chemical binding]; other site 394001717 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 394001718 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 394001719 active site 394001720 catalytic site [active] 394001721 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 394001722 Sulfatase; Region: Sulfatase; pfam00884 394001723 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 394001724 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 394001725 active site 394001726 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 394001727 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 394001728 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394001729 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394001730 DNA binding residues [nucleotide binding] 394001731 dimerization interface [polypeptide binding]; other site 394001732 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 394001733 NMT1-like family; Region: NMT1_2; pfam13379 394001734 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 394001735 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 394001736 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 394001737 Uncharacterized conserved protein [Function unknown]; Region: COG5482 394001738 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394001739 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 394001740 TM-ABC transporter signature motif; other site 394001741 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394001742 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 394001743 TM-ABC transporter signature motif; other site 394001744 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 394001745 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394001746 Walker A/P-loop; other site 394001747 ATP binding site [chemical binding]; other site 394001748 Q-loop/lid; other site 394001749 ABC transporter signature motif; other site 394001750 Walker B; other site 394001751 D-loop; other site 394001752 H-loop/switch region; other site 394001753 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394001754 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 394001755 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 394001756 putative ligand binding site [chemical binding]; other site 394001757 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 394001758 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 394001759 Bacterial SH3 domain; Region: SH3_3; pfam08239 394001760 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 394001761 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 394001762 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 394001763 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 394001764 catalytic residues [active] 394001765 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 394001766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394001767 NAD(P) binding site [chemical binding]; other site 394001768 active site 394001769 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 394001770 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 394001771 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 394001772 conserved cys residue [active] 394001773 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394001774 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 394001775 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 394001776 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 394001777 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394001778 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 394001779 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 394001780 putative active site [active] 394001781 putative FMN binding site [chemical binding]; other site 394001782 putative substrate binding site [chemical binding]; other site 394001783 putative catalytic residue [active] 394001784 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 394001785 dimerization interface [polypeptide binding]; other site 394001786 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394001787 dimer interface [polypeptide binding]; other site 394001788 phosphorylation site [posttranslational modification] 394001789 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394001790 Mg2+ binding site [ion binding]; other site 394001791 G-X-G motif; other site 394001792 osmolarity response regulator; Provisional; Region: ompR; PRK09468 394001793 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394001794 active site 394001795 phosphorylation site [posttranslational modification] 394001796 intermolecular recognition site; other site 394001797 dimerization interface [polypeptide binding]; other site 394001798 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394001799 DNA binding site [nucleotide binding] 394001800 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 394001801 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 394001802 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 394001803 putative ligand binding residues [chemical binding]; other site 394001804 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 394001805 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 394001806 ABC-ATPase subunit interface; other site 394001807 dimer interface [polypeptide binding]; other site 394001808 putative PBP binding regions; other site 394001809 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 394001810 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 394001811 Walker A/P-loop; other site 394001812 ATP binding site [chemical binding]; other site 394001813 Q-loop/lid; other site 394001814 ABC transporter signature motif; other site 394001815 Walker B; other site 394001816 D-loop; other site 394001817 H-loop/switch region; other site 394001818 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 394001819 pseudoazurin; Region: pseudoazurin; TIGR02375 394001820 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 394001821 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 394001822 putative ligand binding site [chemical binding]; other site 394001823 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394001824 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394001825 Walker A/P-loop; other site 394001826 ATP binding site [chemical binding]; other site 394001827 Q-loop/lid; other site 394001828 ABC transporter signature motif; other site 394001829 Walker B; other site 394001830 D-loop; other site 394001831 H-loop/switch region; other site 394001832 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394001833 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394001834 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394001835 TM-ABC transporter signature motif; other site 394001836 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394001837 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394001838 TM-ABC transporter signature motif; other site 394001839 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394001840 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394001841 DNA binding site [nucleotide binding] 394001842 domain linker motif; other site 394001843 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 394001844 dimerization interface [polypeptide binding]; other site 394001845 ligand binding site [chemical binding]; other site 394001846 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394001847 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394001848 Transcriptional regulators [Transcription]; Region: MarR; COG1846 394001849 MarR family; Region: MarR_2; cl17246 394001850 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394001851 Coenzyme A binding pocket [chemical binding]; other site 394001852 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 394001853 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394001854 NAD(P) binding site [chemical binding]; other site 394001855 active site 394001856 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 394001857 oligomeric interface; other site 394001858 putative active site [active] 394001859 homodimer interface [polypeptide binding]; other site 394001860 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 394001861 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 394001862 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394001863 Walker A/P-loop; other site 394001864 ATP binding site [chemical binding]; other site 394001865 Q-loop/lid; other site 394001866 ABC transporter signature motif; other site 394001867 Walker B; other site 394001868 D-loop; other site 394001869 H-loop/switch region; other site 394001870 TOBE domain; Region: TOBE_2; pfam08402 394001871 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 394001872 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 394001873 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 394001874 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 394001875 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394001876 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394001877 dimer interface [polypeptide binding]; other site 394001878 conserved gate region; other site 394001879 putative PBP binding loops; other site 394001880 ABC-ATPase subunit interface; other site 394001881 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 394001882 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394001883 putative PBP binding loops; other site 394001884 ABC-ATPase subunit interface; other site 394001885 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394001886 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394001887 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 394001888 putative active site [active] 394001889 Rv0623-like transcription factor; Region: PSK_trans_fac; cl01834 394001890 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394001891 Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalR; cd01544 394001892 putative dimerization interface [polypeptide binding]; other site 394001893 putative ligand binding site [chemical binding]; other site 394001894 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 394001895 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394001896 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394001897 alpha-galactosidase; Provisional; Region: PRK15076 394001898 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 394001899 NAD binding site [chemical binding]; other site 394001900 sugar binding site [chemical binding]; other site 394001901 divalent metal binding site [ion binding]; other site 394001902 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 394001903 dimer interface [polypeptide binding]; other site 394001904 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 394001905 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 394001906 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 394001907 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394001908 dimer interface [polypeptide binding]; other site 394001909 conserved gate region; other site 394001910 putative PBP binding loops; other site 394001911 ABC-ATPase subunit interface; other site 394001912 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 394001913 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394001914 dimer interface [polypeptide binding]; other site 394001915 conserved gate region; other site 394001916 putative PBP binding loops; other site 394001917 ABC-ATPase subunit interface; other site 394001918 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 394001919 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394001920 Walker A/P-loop; other site 394001921 ATP binding site [chemical binding]; other site 394001922 Q-loop/lid; other site 394001923 ABC transporter signature motif; other site 394001924 Walker B; other site 394001925 D-loop; other site 394001926 H-loop/switch region; other site 394001927 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394001928 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394001929 Walker A/P-loop; other site 394001930 ATP binding site [chemical binding]; other site 394001931 Q-loop/lid; other site 394001932 ABC transporter signature motif; other site 394001933 Walker B; other site 394001934 D-loop; other site 394001935 H-loop/switch region; other site 394001936 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394001937 alpha-galactosidase; Provisional; Region: PRK15076 394001938 Glycoside Hydrolases Family 4; Alpha-glucosidases and alpha-galactosidases; Region: GH4_alpha_glucosidase_galactosidase; cd05297 394001939 NAD binding site [chemical binding]; other site 394001940 sugar binding site [chemical binding]; other site 394001941 divalent metal binding site [ion binding]; other site 394001942 putative tetramer (dimer of dimers) interface [polypeptide binding]; other site 394001943 dimer interface [polypeptide binding]; other site 394001944 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 394001945 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 394001946 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 394001947 malonyl-CoA synthase; Validated; Region: PRK07514 394001948 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 394001949 acyl-activating enzyme (AAE) consensus motif; other site 394001950 active site 394001951 AMP binding site [chemical binding]; other site 394001952 CoA binding site [chemical binding]; other site 394001953 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 394001954 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394001955 Transcriptional regulators [Transcription]; Region: GntR; COG1802 394001956 DNA-binding site [nucleotide binding]; DNA binding site 394001957 FCD domain; Region: FCD; pfam07729 394001958 prevent-host-death family protein; Region: phd_fam; TIGR01552 394001959 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 394001960 oligomeric interface; other site 394001961 putative active site [active] 394001962 homodimer interface [polypeptide binding]; other site 394001963 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 394001964 thiamine phosphate binding site [chemical binding]; other site 394001965 active site 394001966 pyrophosphate binding site [ion binding]; other site 394001967 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 394001968 ThiS interaction site; other site 394001969 putative active site [active] 394001970 tetramer interface [polypeptide binding]; other site 394001971 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 394001972 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 394001973 thiS-thiF/thiG interaction site; other site 394001974 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 394001975 ThiC-associated domain; Region: ThiC-associated; pfam13667 394001976 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 394001977 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394001978 S-adenosylmethionine binding site [chemical binding]; other site 394001979 Major Facilitator Superfamily; Region: MFS_1; pfam07690 394001980 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394001981 putative substrate translocation pore; other site 394001982 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394001983 dimerization interface [polypeptide binding]; other site 394001984 putative DNA binding site [nucleotide binding]; other site 394001985 putative Zn2+ binding site [ion binding]; other site 394001986 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 394001987 active site residue [active] 394001988 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394001989 Major Facilitator Superfamily; Region: MFS_1; pfam07690 394001990 putative substrate translocation pore; other site 394001991 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 394001992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394001993 NAD(P) binding site [chemical binding]; other site 394001994 active site 394001995 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394001996 classical (c) SDRs; Region: SDR_c; cd05233 394001997 NAD(P) binding site [chemical binding]; other site 394001998 active site 394001999 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 394002000 FAD binding domain; Region: FAD_binding_4; pfam01565 394002001 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 394002002 Transcriptional regulators [Transcription]; Region: FadR; COG2186 394002003 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394002004 DNA-binding site [nucleotide binding]; DNA binding site 394002005 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 394002006 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 394002007 active site 394002008 NTP binding site [chemical binding]; other site 394002009 metal binding triad [ion binding]; metal-binding site 394002010 antibiotic binding site [chemical binding]; other site 394002011 Higher Eukarytoes and Prokaryotes Nucleotide-binding domain; Region: HEPN; smart00748 394002012 thiamine pyrophosphate protein; Validated; Region: PRK08199 394002013 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 394002014 PYR/PP interface [polypeptide binding]; other site 394002015 dimer interface [polypeptide binding]; other site 394002016 TPP binding site [chemical binding]; other site 394002017 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 394002018 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 394002019 TPP-binding site [chemical binding]; other site 394002020 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394002021 hydroxyglutarate oxidase; Provisional; Region: PRK11728 394002022 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394002023 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394002024 NAD(P) binding site [chemical binding]; other site 394002025 active site 394002026 aspartate aminotransferase; Provisional; Region: PRK05764 394002027 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394002028 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394002029 homodimer interface [polypeptide binding]; other site 394002030 catalytic residue [active] 394002031 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 394002032 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 394002033 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 394002034 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 394002035 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 394002036 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 394002037 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 394002038 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 394002039 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 394002040 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394002041 substrate binding pocket [chemical binding]; other site 394002042 membrane-bound complex binding site; other site 394002043 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 394002044 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 394002045 ligand binding site [chemical binding]; other site 394002046 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 394002047 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 394002048 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 394002049 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 394002050 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394002051 Walker A/P-loop; other site 394002052 ATP binding site [chemical binding]; other site 394002053 Q-loop/lid; other site 394002054 ABC transporter signature motif; other site 394002055 Walker B; other site 394002056 D-loop; other site 394002057 H-loop/switch region; other site 394002058 ABC-2 type transporter; Region: ABC2_membrane; cl17235 394002059 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 394002060 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 394002061 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 394002062 pseudoazurin; Region: pseudoazurin; TIGR02375 394002063 PAS fold; Region: PAS_7; pfam12860 394002064 PAS fold; Region: PAS_7; pfam12860 394002065 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394002066 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394002067 dimer interface [polypeptide binding]; other site 394002068 phosphorylation site [posttranslational modification] 394002069 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394002070 ATP binding site [chemical binding]; other site 394002071 Mg2+ binding site [ion binding]; other site 394002072 G-X-G motif; other site 394002073 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394002074 Response regulator receiver domain; Region: Response_reg; pfam00072 394002075 active site 394002076 phosphorylation site [posttranslational modification] 394002077 intermolecular recognition site; other site 394002078 dimerization interface [polypeptide binding]; other site 394002079 Uncharacterized conserved protein [Function unknown]; Region: COG3287 394002080 FIST N domain; Region: FIST; pfam08495 394002081 FIST C domain; Region: FIST_C; pfam10442 394002082 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394002083 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394002084 active site 394002085 phosphorylation site [posttranslational modification] 394002086 intermolecular recognition site; other site 394002087 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394002088 DNA binding residues [nucleotide binding] 394002089 dimerization interface [polypeptide binding]; other site 394002090 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 394002091 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 394002092 dimer interface [polypeptide binding]; other site 394002093 Trp docking motif [polypeptide binding]; other site 394002094 active site 394002095 PqqA family; Region: PqqA; pfam08042 394002096 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 394002097 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 394002098 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 394002099 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 394002100 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 394002101 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394002102 FeS/SAM binding site; other site 394002103 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 394002104 Helix-turn-helix domain; Region: HTH_18; pfam12833 394002105 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394002106 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394002107 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 394002108 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394002109 cyclase homology domain; Region: CHD; cd07302 394002110 nucleotidyl binding site; other site 394002111 metal binding site [ion binding]; metal-binding site 394002112 dimer interface [polypeptide binding]; other site 394002113 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 394002114 putative hydrophobic ligand binding site [chemical binding]; other site 394002115 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 394002116 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 394002117 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394002118 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394002119 active site 394002120 phosphorylation site [posttranslational modification] 394002121 intermolecular recognition site; other site 394002122 dimerization interface [polypeptide binding]; other site 394002123 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394002124 DNA binding residues [nucleotide binding] 394002125 dimerization interface [polypeptide binding]; other site 394002126 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 394002127 Histidine kinase; Region: HisKA_3; pfam07730 394002128 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394002129 ATP binding site [chemical binding]; other site 394002130 Mg2+ binding site [ion binding]; other site 394002131 G-X-G motif; other site 394002132 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394002133 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394002134 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394002135 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 394002136 putative substrate binding pocket [chemical binding]; other site 394002137 putative dimerization interface [polypeptide binding]; other site 394002138 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 394002139 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394002140 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 394002141 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 394002142 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 394002143 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 394002144 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394002145 catalytic residue [active] 394002146 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 394002147 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394002148 dimer interface [polypeptide binding]; other site 394002149 conserved gate region; other site 394002150 putative PBP binding loops; other site 394002151 ABC-ATPase subunit interface; other site 394002152 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 394002153 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394002154 dimer interface [polypeptide binding]; other site 394002155 conserved gate region; other site 394002156 putative PBP binding loops; other site 394002157 ABC-ATPase subunit interface; other site 394002158 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394002159 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 394002160 substrate binding pocket [chemical binding]; other site 394002161 membrane-bound complex binding site; other site 394002162 hinge residues; other site 394002163 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 394002164 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 394002165 Walker A/P-loop; other site 394002166 ATP binding site [chemical binding]; other site 394002167 Q-loop/lid; other site 394002168 ABC transporter signature motif; other site 394002169 Walker B; other site 394002170 D-loop; other site 394002171 H-loop/switch region; other site 394002172 ParB-like nuclease domain; Region: ParBc; pfam02195 394002173 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 394002174 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Y4yA; Region: PLPDE_III_Y4yA_like; cd06842 394002175 dimer interface [polypeptide binding]; other site 394002176 active site 394002177 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 394002178 catalytic residues [active] 394002179 substrate binding site [chemical binding]; other site 394002180 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 394002181 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 394002182 dimer interface [polypeptide binding]; other site 394002183 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394002184 catalytic residue [active] 394002185 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 394002186 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 394002187 IucA / IucC family; Region: IucA_IucC; pfam04183 394002188 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 394002189 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394002190 Major Facilitator Superfamily; Region: MFS_1; pfam07690 394002191 putative substrate translocation pore; other site 394002192 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 394002193 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 394002194 putative ligand binding residues [chemical binding]; other site 394002195 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 394002196 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 394002197 N-terminal plug; other site 394002198 ligand-binding site [chemical binding]; other site 394002199 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394002200 classical (c) SDRs; Region: SDR_c; cd05233 394002201 NAD(P) binding site [chemical binding]; other site 394002202 active site 394002203 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394002204 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394002205 dimer interface [polypeptide binding]; other site 394002206 conserved gate region; other site 394002207 putative PBP binding loops; other site 394002208 ABC-ATPase subunit interface; other site 394002209 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394002210 dimer interface [polypeptide binding]; other site 394002211 conserved gate region; other site 394002212 putative PBP binding loops; other site 394002213 ABC-ATPase subunit interface; other site 394002214 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 394002215 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 394002216 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 394002217 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394002218 Walker A/P-loop; other site 394002219 ATP binding site [chemical binding]; other site 394002220 Q-loop/lid; other site 394002221 ABC transporter signature motif; other site 394002222 Walker B; other site 394002223 D-loop; other site 394002224 H-loop/switch region; other site 394002225 TOBE domain; Region: TOBE_2; pfam08402 394002226 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394002227 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394002228 DNA binding residues [nucleotide binding] 394002229 dimerization interface [polypeptide binding]; other site 394002230 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 394002231 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 394002232 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 394002233 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 394002234 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 394002235 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 394002236 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 394002237 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 394002238 TadE-like protein; Region: TadE; pfam07811 394002239 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 394002240 TadE-like protein; Region: TadE; pfam07811 394002241 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 394002242 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 394002243 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 394002244 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 394002245 ATP binding site [chemical binding]; other site 394002246 Walker A motif; other site 394002247 hexamer interface [polypeptide binding]; other site 394002248 Walker B motif; other site 394002249 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 394002250 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 394002251 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 394002252 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 394002253 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 394002254 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 394002255 phosphorylation site [posttranslational modification] 394002256 intermolecular recognition site; other site 394002257 CheB methylesterase; Region: CheB_methylest; pfam01339 394002258 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 394002259 putative binding surface; other site 394002260 active site 394002261 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 394002262 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394002263 ATP binding site [chemical binding]; other site 394002264 Mg2+ binding site [ion binding]; other site 394002265 G-X-G motif; other site 394002266 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 394002267 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 394002268 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394002269 active site 394002270 phosphorylation site [posttranslational modification] 394002271 intermolecular recognition site; other site 394002272 dimerization interface [polypeptide binding]; other site 394002273 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 394002274 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 394002275 dimerization interface [polypeptide binding]; other site 394002276 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394002277 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394002278 dimer interface [polypeptide binding]; other site 394002279 putative CheW interface [polypeptide binding]; other site 394002280 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 394002281 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 394002282 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394002283 S-adenosylmethionine binding site [chemical binding]; other site 394002284 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394002285 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394002286 active site 394002287 phosphorylation site [posttranslational modification] 394002288 intermolecular recognition site; other site 394002289 dimerization interface [polypeptide binding]; other site 394002290 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394002291 DNA binding residues [nucleotide binding] 394002292 dimerization interface [polypeptide binding]; other site 394002293 Fic family protein [Function unknown]; Region: COG3177 394002294 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 394002295 Peptidase; Region: DUF3663; pfam12404 394002296 agmatinase; Region: agmatinase; TIGR01230 394002297 Agmatinase-like family; Region: Agmatinase-like; cd09990 394002298 active site 394002299 oligomer interface [polypeptide binding]; other site 394002300 Mn binding site [ion binding]; other site 394002301 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 394002302 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 394002303 Walker A/P-loop; other site 394002304 ATP binding site [chemical binding]; other site 394002305 Q-loop/lid; other site 394002306 ABC transporter signature motif; other site 394002307 Walker B; other site 394002308 D-loop; other site 394002309 H-loop/switch region; other site 394002310 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 394002311 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394002312 dimer interface [polypeptide binding]; other site 394002313 conserved gate region; other site 394002314 putative PBP binding loops; other site 394002315 ABC-ATPase subunit interface; other site 394002316 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 394002317 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 394002318 NGR_b03910; cis acting element, ykkC-yxkD, RF00442 394002319 allophanate hydrolase; Provisional; Region: PRK08186 394002320 Amidase; Region: Amidase; cl11426 394002321 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 394002322 Isochorismatase family; Region: Isochorismatase; pfam00857 394002323 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 394002324 catalytic triad [active] 394002325 conserved cis-peptide bond; other site 394002326 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 394002327 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394002328 Walker A/P-loop; other site 394002329 ATP binding site [chemical binding]; other site 394002330 Q-loop/lid; other site 394002331 ABC transporter signature motif; other site 394002332 Walker B; other site 394002333 D-loop; other site 394002334 H-loop/switch region; other site 394002335 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394002336 Isochorismatase family; Region: Isochorismatase; pfam00857 394002337 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 394002338 catalytic triad [active] 394002339 conserved cis-peptide bond; other site 394002340 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394002341 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 394002342 TM-ABC transporter signature motif; other site 394002343 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394002344 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 394002345 TM-ABC transporter signature motif; other site 394002346 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 394002347 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 394002348 putative ligand binding site [chemical binding]; other site 394002349 Transcriptional regulators [Transcription]; Region: GntR; COG1802 394002350 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394002351 DNA-binding site [nucleotide binding]; DNA binding site 394002352 FCD domain; Region: FCD; pfam07729 394002353 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394002354 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 394002355 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394002356 dimer interface [polypeptide binding]; other site 394002357 conserved gate region; other site 394002358 putative PBP binding loops; other site 394002359 ABC-ATPase subunit interface; other site 394002360 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394002361 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394002362 dimer interface [polypeptide binding]; other site 394002363 conserved gate region; other site 394002364 putative PBP binding loops; other site 394002365 ABC-ATPase subunit interface; other site 394002366 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 394002367 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394002368 Walker A/P-loop; other site 394002369 ATP binding site [chemical binding]; other site 394002370 Q-loop/lid; other site 394002371 ABC transporter signature motif; other site 394002372 Walker B; other site 394002373 D-loop; other site 394002374 H-loop/switch region; other site 394002375 TOBE domain; Region: TOBE_2; pfam08402 394002376 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 394002377 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394002378 Walker A/P-loop; other site 394002379 ATP binding site [chemical binding]; other site 394002380 Q-loop/lid; other site 394002381 ABC transporter signature motif; other site 394002382 Walker B; other site 394002383 D-loop; other site 394002384 H-loop/switch region; other site 394002385 TOBE domain; Region: TOBE_2; pfam08402 394002386 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 394002387 dihydroxyacetone kinase, ATP-dependent; Region: dak_ATP; TIGR02361 394002388 DAK2 domain; Region: Dak2; pfam02734 394002389 DAK2 domain; Region: Dak2; cl03685 394002390 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 394002391 active site 394002392 active pocket/dimerization site; other site 394002393 phosphorylation site [posttranslational modification] 394002394 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 394002395 dimerization domain swap beta strand [polypeptide binding]; other site 394002396 regulatory protein interface [polypeptide binding]; other site 394002397 active site 394002398 regulatory phosphorylation site [posttranslational modification]; other site 394002399 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 394002400 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 394002401 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 394002402 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 394002403 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 394002404 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 394002405 Divergent AAA domain; Region: AAA_4; pfam04326 394002406 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 394002407 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 394002408 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 394002409 CGNR zinc finger; Region: zf-CGNR; pfam11706 394002410 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 394002411 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 394002412 FCD domain; Region: FCD; pfam07729 394002413 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 394002414 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 394002415 N-terminal domain of MhqB, a type I extradiol dioxygenase, and similar proteins; Region: MhqB_like_N; cd08344 394002416 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 394002417 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 394002418 active site 394002419 metal binding site [ion binding]; metal-binding site 394002420 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394002421 classical (c) SDRs; Region: SDR_c; cd05233 394002422 NAD(P) binding site [chemical binding]; other site 394002423 active site 394002424 SnoaL-like domain; Region: SnoaL_2; pfam12680 394002425 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394002426 oxidoreductase; Provisional; Region: PRK12743 394002427 NAD(P) binding site [chemical binding]; other site 394002428 active site 394002429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394002430 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 394002431 NAD(P) binding site [chemical binding]; other site 394002432 active site 394002433 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 394002434 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 394002435 ligand binding site [chemical binding]; other site 394002436 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 394002437 classical (c) SDRs; Region: SDR_c; cd05233 394002438 NAD(P) binding site [chemical binding]; other site 394002439 active site 394002440 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 394002441 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 394002442 ligand binding site [chemical binding]; other site 394002443 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 394002444 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 394002445 ligand binding site [chemical binding]; other site 394002446 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 394002447 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394002448 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394002449 Walker A/P-loop; other site 394002450 ATP binding site [chemical binding]; other site 394002451 Q-loop/lid; other site 394002452 ABC transporter signature motif; other site 394002453 Walker B; other site 394002454 D-loop; other site 394002455 H-loop/switch region; other site 394002456 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394002457 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394002458 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394002459 TM-ABC transporter signature motif; other site 394002460 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 394002461 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cl10029 394002462 potential frameshift: common BLAST hit: gi|148656619|ref|YP_001276824.1| oxidoreductase domain-containing protein 394002463 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394002464 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394002465 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394002466 putative beta-ketoacyl acyl carrier protein [ACP]reductase (BKR), subgroup 2, classical (c) SDR; Region: BKR_2_SDR_c; cd05349 394002467 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 394002468 putative NAD(P) binding site [chemical binding]; other site 394002469 active site 394002470 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394002471 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394002472 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394002473 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394002474 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394002475 TM-ABC transporter signature motif; other site 394002476 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394002477 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394002478 Walker A/P-loop; other site 394002479 ATP binding site [chemical binding]; other site 394002480 Q-loop/lid; other site 394002481 ABC transporter signature motif; other site 394002482 Walker B; other site 394002483 D-loop; other site 394002484 H-loop/switch region; other site 394002485 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394002486 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394002487 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394002488 TM-ABC transporter signature motif; other site 394002489 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 394002490 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 394002491 ligand binding site [chemical binding]; other site 394002492 Periplasmic binding proteins and sugar binding domain of LacI family; Region: Peripla_BP_1; pfam00532 394002493 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 394002494 putative dimerization interface [polypeptide binding]; other site 394002495 putative ligand binding site [chemical binding]; other site 394002496 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 394002497 histidinol dehydrogenase; Region: hisD; TIGR00069 394002498 NAD binding site [chemical binding]; other site 394002499 dimerization interface [polypeptide binding]; other site 394002500 product binding site; other site 394002501 substrate binding site [chemical binding]; other site 394002502 zinc binding site [ion binding]; other site 394002503 catalytic residues [active] 394002504 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394002505 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 394002506 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394002507 short chain dehydrogenase; Provisional; Region: PRK07060 394002508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394002509 NAD(P) binding site [chemical binding]; other site 394002510 active site 394002511 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 394002512 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 394002513 ligand binding site [chemical binding]; other site 394002514 homodimer interface [polypeptide binding]; other site 394002515 NAD(P) binding site [chemical binding]; other site 394002516 trimer interface B [polypeptide binding]; other site 394002517 trimer interface A [polypeptide binding]; other site 394002518 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 394002519 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 394002520 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 394002521 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394002522 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394002523 DNA binding site [nucleotide binding] 394002524 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 394002525 putative dimerization interface [polypeptide binding]; other site 394002526 putative ligand binding site [chemical binding]; other site 394002527 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 394002528 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 394002529 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 394002530 putative ligand binding site [chemical binding]; other site 394002531 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 394002532 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 394002533 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 394002534 PYR/PP interface [polypeptide binding]; other site 394002535 dimer interface [polypeptide binding]; other site 394002536 TPP binding site [chemical binding]; other site 394002537 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 394002538 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 394002539 TPP-binding site; other site 394002540 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394002541 classical (c) SDRs; Region: SDR_c; cd05233 394002542 NAD(P) binding site [chemical binding]; other site 394002543 active site 394002544 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394002545 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394002546 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394002547 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394002548 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394002549 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394002550 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394002551 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394002552 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394002553 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 394002554 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 394002555 putative ligand binding site [chemical binding]; other site 394002556 putative NAD binding site [chemical binding]; other site 394002557 catalytic site [active] 394002558 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 394002559 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394002560 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394002561 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 394002562 dimerization interface [polypeptide binding]; other site 394002563 agmatinase; Region: agmatinase; TIGR01230 394002564 Agmatinase and related proteins; Region: Agmatinase_like_1; cd11589 394002565 oligomer interface [polypeptide binding]; other site 394002566 active site 394002567 Mn binding site [ion binding]; other site 394002568 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 394002569 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 394002570 NAD(P) binding site [chemical binding]; other site 394002571 catalytic residues [active] 394002572 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 394002573 Na binding site [ion binding]; other site 394002574 choline dehydrogenase; Validated; Region: PRK02106 394002575 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cl00137 394002576 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 394002577 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 394002578 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: VapC; COG1487 394002579 putative active site [active] 394002580 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 394002581 Uncharacterized conserved protein [Function unknown]; Region: COG5588 394002582 Predicted small integral membrane protein [Function unknown]; Region: COG5478 394002583 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 394002584 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 394002585 putative DNA binding site [nucleotide binding]; other site 394002586 putative homodimer interface [polypeptide binding]; other site 394002587 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 394002588 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 394002589 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 394002590 active site 394002591 DNA binding site [nucleotide binding] 394002592 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 394002593 DNA binding site [nucleotide binding] 394002594 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 394002595 nucleotide binding site [chemical binding]; other site 394002596 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 394002597 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 394002598 putative DNA binding site [nucleotide binding]; other site 394002599 putative homodimer interface [polypeptide binding]; other site 394002600 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 394002601 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 394002602 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 394002603 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 394002604 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 394002605 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 394002606 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 394002607 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 394002608 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 394002609 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 394002610 catalytic loop [active] 394002611 iron binding site [ion binding]; other site 394002612 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 394002613 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394002614 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394002615 short chain dehydrogenase; Provisional; Region: PRK06180 394002616 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 394002617 NADP binding site [chemical binding]; other site 394002618 active site 394002619 steroid binding site; other site 394002620 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394002621 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394002622 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 394002623 putative effector binding pocket; other site 394002624 putative dimerization interface [polypeptide binding]; other site 394002625 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394002626 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394002627 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 394002628 dimerization interface [polypeptide binding]; other site 394002629 choline dehydrogenase; Validated; Region: PRK02106 394002630 lycopene cyclase; Region: lycopene_cycl; TIGR01789 394002631 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 394002632 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 394002633 CoA-transferase family III; Region: CoA_transf_3; pfam02515 394002634 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 394002635 CoA-transferase family III; Region: CoA_transf_3; pfam02515 394002636 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 394002637 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 394002638 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394002639 dimer interface [polypeptide binding]; other site 394002640 conserved gate region; other site 394002641 putative PBP binding loops; other site 394002642 ABC-ATPase subunit interface; other site 394002643 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 394002644 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 394002645 Walker A/P-loop; other site 394002646 ATP binding site [chemical binding]; other site 394002647 Q-loop/lid; other site 394002648 ABC transporter signature motif; other site 394002649 Walker B; other site 394002650 D-loop; other site 394002651 H-loop/switch region; other site 394002652 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 394002653 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 394002654 DNA binding site [nucleotide binding] 394002655 active site 394002656 Int/Topo IB signature motif; other site 394002657 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 394002658 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 394002659 dimer interface [polypeptide binding]; other site 394002660 active site 394002661 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394002662 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394002663 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 394002664 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 394002665 HlyD family secretion protein; Region: HlyD_3; pfam13437 394002666 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 394002667 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394002668 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394002669 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 394002670 CoenzymeA binding site [chemical binding]; other site 394002671 subunit interaction site [polypeptide binding]; other site 394002672 PHB binding site; other site 394002673 short chain dehydrogenase; Provisional; Region: PRK06179 394002674 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 394002675 NADP binding site [chemical binding]; other site 394002676 active site 394002677 steroid binding site; other site 394002678 Uncharacterized conserved protein [Function unknown]; Region: COG5361 394002679 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 394002680 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 394002681 Protein of unknown function (DUF3604); Region: DUF3604; pfam12228 394002682 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 394002683 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 394002684 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 394002685 Predicted integral membrane protein [Function unknown]; Region: COG5616 394002686 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394002687 TPR motif; other site 394002688 binding surface 394002689 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394002690 binding surface 394002691 TPR motif; other site 394002692 Predicted periplasmic protein (DUF2092); Region: DUF2092; pfam09865 394002693 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 394002694 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 394002695 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 394002696 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 394002697 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 394002698 ring oligomerisation interface [polypeptide binding]; other site 394002699 ATP/Mg binding site [chemical binding]; other site 394002700 stacking interactions; other site 394002701 hinge regions; other site 394002702 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 394002703 oligomerisation interface [polypeptide binding]; other site 394002704 mobile loop; other site 394002705 roof hairpin; other site 394002706 NGR_b05120; temperature sensor, ROSE, RF00435 394002707 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 394002708 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 394002709 putative dimer interface [polypeptide binding]; other site 394002710 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 394002711 SPW repeat; Region: SPW; pfam03779 394002712 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 394002713 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 394002714 ligand binding site [chemical binding]; other site 394002715 flexible hinge region; other site 394002716 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 394002717 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 394002718 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394002719 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394002720 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 394002721 putative effector binding pocket; other site 394002722 dimerization interface [polypeptide binding]; other site 394002723 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 394002724 N-acetyltransferase; Region: Acetyltransf_2; cl00949 394002725 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 394002726 potential frameshift: common BLAST hit: gi|120554826|ref|YP_959177.1| methyltransferase type 11 394002727 HNH endonuclease; Region: HNH_4; pfam13395 394002728 Methyltransferase domain; Region: Methyltransf_23; pfam13489 394002729 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394002730 S-adenosylmethionine binding site [chemical binding]; other site 394002731 Domain of unknown function (DUF2431); Region: DUF2431; pfam10354 394002732 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 394002733 Divergent AAA domain; Region: AAA_4; pfam04326 394002734 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 394002735 EVE domain; Region: EVE; cl00728 394002736 Domain of unknown function DUF302; Region: DUF302; pfam03625 394002737 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394002738 putative substrate translocation pore; other site 394002739 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 394002740 Cupin domain; Region: Cupin_2; cl17218 394002741 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394002742 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394002743 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 394002744 dimerization interface [polypeptide binding]; other site 394002745 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 394002746 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394002747 NAD(P) binding site [chemical binding]; other site 394002748 active site 394002749 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 394002750 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 394002751 active site 394002752 nucleophile elbow; other site 394002753 hypothetical protein; Provisional; Region: PRK05409 394002754 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 394002755 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 394002756 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 394002757 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394002758 Cache domain; Region: Cache_1; pfam02743 394002759 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394002760 cyclase homology domain; Region: CHD; cd07302 394002761 nucleotidyl binding site; other site 394002762 metal binding site [ion binding]; metal-binding site 394002763 dimer interface [polypeptide binding]; other site 394002764 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 394002765 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 394002766 transposase; Validated; Region: PRK08181 394002767 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394002768 Walker A motif; other site 394002769 ATP binding site [chemical binding]; other site 394002770 Integrase core domain; Region: rve; pfam00665 394002771 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394002772 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394002773 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 394002774 homotrimer interaction site [polypeptide binding]; other site 394002775 putative active site [active] 394002776 Epoxide hydrolase N terminus; Region: EHN; pfam06441 394002777 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 394002778 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394002779 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394002780 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 394002781 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 394002782 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 394002783 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 394002784 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 394002785 Uncharacterized conserved protein [Function unknown]; Region: COG2128 394002786 Cupin domain; Region: Cupin_2; pfam07883 394002787 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 394002788 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394002789 Predicted transcriptional regulator [Transcription]; Region: COG1959 394002790 Transcriptional regulator; Region: Rrf2; pfam02082 394002791 methionine sulfoxide reductase A; Provisional; Region: PRK14054 394002792 methionine sulfoxide reductase B; Provisional; Region: PRK00222 394002793 SelR domain; Region: SelR; pfam01641 394002794 indole acetimide hydrolase; Validated; Region: PRK07488 394002795 Amidase; Region: Amidase; pfam01425 394002796 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 394002797 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 394002798 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394002799 Protein of unknown function, DUF417; Region: DUF417; cl01162 394002800 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394002801 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394002802 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394002803 cyclase homology domain; Region: CHD; cd07302 394002804 nucleotidyl binding site; other site 394002805 metal binding site [ion binding]; metal-binding site 394002806 dimer interface [polypeptide binding]; other site 394002807 Predicted integral membrane protein [Function unknown]; Region: COG5616 394002808 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 394002809 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394002810 TPR motif; other site 394002811 binding surface 394002812 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394002813 TPR motif; other site 394002814 binding surface 394002815 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 394002816 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394002817 S-adenosylmethionine binding site [chemical binding]; other site 394002818 Erythromycin esterase; Region: Erythro_esteras; pfam05139 394002819 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 394002820 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 394002821 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 394002822 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 394002823 oligomerisation interface [polypeptide binding]; other site 394002824 mobile loop; other site 394002825 roof hairpin; other site 394002826 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 394002827 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 394002828 ring oligomerisation interface [polypeptide binding]; other site 394002829 ATP/Mg binding site [chemical binding]; other site 394002830 stacking interactions; other site 394002831 hinge regions; other site 394002832 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 394002833 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 394002834 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 394002835 protein binding site [polypeptide binding]; other site 394002836 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 394002837 Protein of unknown function (DUF982); Region: DUF982; pfam06169 394002838 DDE superfamily endonuclease; Region: DDE_3; pfam13358 394002839 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 394002840 Homeodomain-like domain; Region: HTH_23; cl17451 394002841 Winged helix-turn helix; Region: HTH_29; pfam13551 394002842 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 394002843 Putative transposase; Region: Y2_Tnp; pfam04986 394002844 integron integrase; Region: integrase_gron; TIGR02249 394002845 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 394002846 Int/Topo IB signature motif; other site 394002847 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394002848 substrate binding pocket [chemical binding]; other site 394002849 membrane-bound complex binding site; other site 394002850 hinge residues; other site 394002851 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase; Region: HpaI; TIGR02311 394002852 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 394002853 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 394002854 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 394002855 dimer interface [polypeptide binding]; other site 394002856 active site 394002857 Transcriptional regulators [Transcription]; Region: GntR; COG1802 394002858 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394002859 DNA-binding site [nucleotide binding]; DNA binding site 394002860 FCD domain; Region: FCD; pfam07729 394002861 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 394002862 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394002863 dimer interface [polypeptide binding]; other site 394002864 conserved gate region; other site 394002865 putative PBP binding loops; other site 394002866 ABC-ATPase subunit interface; other site 394002867 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394002868 dimer interface [polypeptide binding]; other site 394002869 conserved gate region; other site 394002870 putative PBP binding loops; other site 394002871 ABC-ATPase subunit interface; other site 394002872 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 394002873 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394002874 substrate binding pocket [chemical binding]; other site 394002875 membrane-bound complex binding site; other site 394002876 hinge residues; other site 394002877 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 394002878 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 394002879 Walker A/P-loop; other site 394002880 ATP binding site [chemical binding]; other site 394002881 Q-loop/lid; other site 394002882 ABC transporter signature motif; other site 394002883 Walker B; other site 394002884 D-loop; other site 394002885 H-loop/switch region; other site 394002886 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 394002887 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 394002888 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 394002889 shikimate binding site; other site 394002890 NAD(P) binding site [chemical binding]; other site 394002891 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 394002892 putative substrate binding pocket [chemical binding]; other site 394002893 trimer interface [polypeptide binding]; other site 394002894 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 394002895 Dehydroquinase class II; Region: DHquinase_II; pfam01220 394002896 trimer interface [polypeptide binding]; other site 394002897 active site 394002898 dimer interface [polypeptide binding]; other site 394002899 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394002900 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394002901 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394002902 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 394002903 active site 394002904 catalytic residues [active] 394002905 DNA binding site [nucleotide binding] 394002906 Int/Topo IB signature motif; other site 394002907 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394002908 cyclase homology domain; Region: CHD; cd07302 394002909 nucleotidyl binding site; other site 394002910 metal binding site [ion binding]; metal-binding site 394002911 dimer interface [polypeptide binding]; other site 394002912 Predicted integral membrane protein [Function unknown]; Region: COG5616 394002913 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394002914 TPR motif; other site 394002915 binding surface 394002916 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 394002917 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 394002918 active site residue [active] 394002919 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 394002920 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394002921 Walker A/P-loop; other site 394002922 ATP binding site [chemical binding]; other site 394002923 Q-loop/lid; other site 394002924 ABC transporter signature motif; other site 394002925 Walker B; other site 394002926 D-loop; other site 394002927 H-loop/switch region; other site 394002928 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394002929 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394002930 Walker A/P-loop; other site 394002931 ATP binding site [chemical binding]; other site 394002932 Q-loop/lid; other site 394002933 ABC transporter signature motif; other site 394002934 Walker B; other site 394002935 D-loop; other site 394002936 H-loop/switch region; other site 394002937 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 394002938 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394002939 ABC-ATPase subunit interface; other site 394002940 putative PBP binding loops; other site 394002941 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 394002942 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394002943 dimer interface [polypeptide binding]; other site 394002944 conserved gate region; other site 394002945 putative PBP binding loops; other site 394002946 ABC-ATPase subunit interface; other site 394002947 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 394002948 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 394002949 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 394002950 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 394002951 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 394002952 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 394002953 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 394002954 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 394002955 CopC domain; Region: CopC; pfam04234 394002956 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 394002957 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 394002958 putative catalytic residues [active] 394002959 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 394002960 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394002961 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394002962 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 394002963 putative dimerization interface [polypeptide binding]; other site 394002964 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 394002965 NMT1-like family; Region: NMT1_2; pfam13379 394002966 NMT1/THI5 like; Region: NMT1; pfam09084 394002967 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 394002968 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 394002969 Walker A/P-loop; other site 394002970 ATP binding site [chemical binding]; other site 394002971 Q-loop/lid; other site 394002972 ABC transporter signature motif; other site 394002973 Walker B; other site 394002974 D-loop; other site 394002975 H-loop/switch region; other site 394002976 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 394002977 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394002978 dimer interface [polypeptide binding]; other site 394002979 conserved gate region; other site 394002980 putative PBP binding loops; other site 394002981 ABC-ATPase subunit interface; other site 394002982 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394002983 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394002984 active site 394002985 catalytic tetrad [active] 394002986 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 394002987 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394002988 Walker A/P-loop; other site 394002989 ATP binding site [chemical binding]; other site 394002990 Q-loop/lid; other site 394002991 ABC transporter signature motif; other site 394002992 Walker B; other site 394002993 D-loop; other site 394002994 H-loop/switch region; other site 394002995 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394002996 Walker A/P-loop; other site 394002997 ATP binding site [chemical binding]; other site 394002998 Q-loop/lid; other site 394002999 ABC transporter signature motif; other site 394003000 Walker B; other site 394003001 D-loop; other site 394003002 H-loop/switch region; other site 394003003 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394003004 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 394003005 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394003006 dimer interface [polypeptide binding]; other site 394003007 conserved gate region; other site 394003008 ABC-ATPase subunit interface; other site 394003009 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 394003010 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394003011 dimer interface [polypeptide binding]; other site 394003012 conserved gate region; other site 394003013 putative PBP binding loops; other site 394003014 ABC-ATPase subunit interface; other site 394003015 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 394003016 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 394003017 hypothetical protein; Provisional; Region: PRK05965 394003018 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394003019 inhibitor-cofactor binding pocket; inhibition site 394003020 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394003021 catalytic residue [active] 394003022 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394003023 Coenzyme A binding pocket [chemical binding]; other site 394003024 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 394003025 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 394003026 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 394003027 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394003028 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394003029 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394003030 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_2; cd08471 394003031 putative effector binding pocket; other site 394003032 putative dimerization interface [polypeptide binding]; other site 394003033 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394003034 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 394003035 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 394003036 putative N-terminal domain interface [polypeptide binding]; other site 394003037 putative dimer interface [polypeptide binding]; other site 394003038 putative substrate binding pocket (H-site) [chemical binding]; other site 394003039 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 394003040 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 394003041 succinic semialdehyde dehydrogenase; Region: PLN02278 394003042 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 394003043 tetramerization interface [polypeptide binding]; other site 394003044 NAD(P) binding site [chemical binding]; other site 394003045 catalytic residues [active] 394003046 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 394003047 tartrate dehydrogenase; Region: TTC; TIGR02089 394003048 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 394003049 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 394003050 NAD(P) binding site [chemical binding]; other site 394003051 catalytic residues [active] 394003052 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 394003053 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 394003054 putative ligand binding site [chemical binding]; other site 394003055 NAD binding site [chemical binding]; other site 394003056 dimerization interface [polypeptide binding]; other site 394003057 catalytic site [active] 394003058 acetylornithine deacetylase; Provisional; Region: PRK07522 394003059 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 394003060 metal binding site [ion binding]; metal-binding site 394003061 putative dimer interface [polypeptide binding]; other site 394003062 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 394003063 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 394003064 potential frameshift: common BLAST hit: gi|150377441|ref|YP_001314036.1| catalase/peroxidase HPI 394003065 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 394003066 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 394003067 dimer interface [polypeptide binding]; other site 394003068 active site 394003069 heme binding site [chemical binding]; other site 394003070 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 394003071 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 394003072 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 394003073 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 394003074 NAD binding site [chemical binding]; other site 394003075 catalytic residues [active] 394003076 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 394003077 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 394003078 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 394003079 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394003080 hydroxyglutarate oxidase; Provisional; Region: PRK11728 394003081 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394003082 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 394003083 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; pfam01177 394003084 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 394003085 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 394003086 tetramer interface [polypeptide binding]; other site 394003087 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394003088 catalytic residue [active] 394003089 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 394003090 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 394003091 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394003092 Coenzyme A binding pocket [chemical binding]; other site 394003093 hypothetical protein; Provisional; Region: PRK05965 394003094 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 394003095 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394003096 Coenzyme A binding pocket [chemical binding]; other site 394003097 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394003098 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394003099 putative DNA binding site [nucleotide binding]; other site 394003100 putative Zn2+ binding site [ion binding]; other site 394003101 AsnC family; Region: AsnC_trans_reg; pfam01037 394003102 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 394003103 tartrate dehydrogenase; Region: TTC; TIGR02089 394003104 Transcriptional regulators [Transcription]; Region: GntR; COG1802 394003105 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394003106 DNA-binding site [nucleotide binding]; DNA binding site 394003107 FCD domain; Region: FCD; pfam07729 394003108 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 394003109 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394003110 inhibitor-cofactor binding pocket; inhibition site 394003111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394003112 catalytic residue [active] 394003113 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 394003114 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 394003115 active site 394003116 ATP binding site [chemical binding]; other site 394003117 substrate binding site [chemical binding]; other site 394003118 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 394003119 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 394003120 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 394003121 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 394003122 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394003123 motif II; other site 394003124 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 394003125 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 394003126 active site 394003127 ATP binding site [chemical binding]; other site 394003128 substrate binding site [chemical binding]; other site 394003129 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 394003130 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394003131 inhibitor-cofactor binding pocket; inhibition site 394003132 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394003133 catalytic residue [active] 394003134 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394003135 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394003136 putative DNA binding site [nucleotide binding]; other site 394003137 putative Zn2+ binding site [ion binding]; other site 394003138 AsnC family; Region: AsnC_trans_reg; pfam01037 394003139 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 394003140 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394003141 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 394003142 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 394003143 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 394003144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 394003145 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 394003146 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394003147 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394003148 dimerization interface [polypeptide binding]; other site 394003149 Transcriptional regulators [Transcription]; Region: FadR; COG2186 394003150 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394003151 DNA-binding site [nucleotide binding]; DNA binding site 394003152 FCD domain; Region: FCD; pfam07729 394003153 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 394003154 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394003155 Walker A/P-loop; other site 394003156 ATP binding site [chemical binding]; other site 394003157 Q-loop/lid; other site 394003158 ABC transporter signature motif; other site 394003159 Walker B; other site 394003160 D-loop; other site 394003161 H-loop/switch region; other site 394003162 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394003163 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394003164 Walker A/P-loop; other site 394003165 ATP binding site [chemical binding]; other site 394003166 Q-loop/lid; other site 394003167 ABC transporter signature motif; other site 394003168 Walker B; other site 394003169 D-loop; other site 394003170 H-loop/switch region; other site 394003171 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394003172 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 394003173 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 394003174 peptide binding site [polypeptide binding]; other site 394003175 dimer interface [polypeptide binding]; other site 394003176 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 394003177 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394003178 dimer interface [polypeptide binding]; other site 394003179 conserved gate region; other site 394003180 putative PBP binding loops; other site 394003181 ABC-ATPase subunit interface; other site 394003182 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 394003183 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 394003184 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394003185 dimer interface [polypeptide binding]; other site 394003186 conserved gate region; other site 394003187 putative PBP binding loops; other site 394003188 ABC-ATPase subunit interface; other site 394003189 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 394003190 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394003191 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394003192 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 394003193 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394003194 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394003195 putative DNA binding site [nucleotide binding]; other site 394003196 putative Zn2+ binding site [ion binding]; other site 394003197 AsnC family; Region: AsnC_trans_reg; pfam01037 394003198 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394003199 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394003200 putative DNA binding site [nucleotide binding]; other site 394003201 putative Zn2+ binding site [ion binding]; other site 394003202 AsnC family; Region: AsnC_trans_reg; pfam01037 394003203 hypothetical protein; Provisional; Region: PRK07482 394003204 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394003205 inhibitor-cofactor binding pocket; inhibition site 394003206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394003207 catalytic residue [active] 394003208 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 394003209 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 394003210 Walker A/P-loop; other site 394003211 ATP binding site [chemical binding]; other site 394003212 Q-loop/lid; other site 394003213 ABC transporter signature motif; other site 394003214 Walker B; other site 394003215 D-loop; other site 394003216 H-loop/switch region; other site 394003217 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 394003218 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394003219 substrate binding pocket [chemical binding]; other site 394003220 membrane-bound complex binding site; other site 394003221 hinge residues; other site 394003222 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 394003223 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394003224 dimer interface [polypeptide binding]; other site 394003225 conserved gate region; other site 394003226 putative PBP binding loops; other site 394003227 ABC-ATPase subunit interface; other site 394003228 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 394003229 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394003230 dimer interface [polypeptide binding]; other site 394003231 conserved gate region; other site 394003232 putative PBP binding loops; other site 394003233 ABC-ATPase subunit interface; other site 394003234 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 394003235 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 394003236 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 394003237 tetramer interface [polypeptide binding]; other site 394003238 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394003239 catalytic residue [active] 394003240 ectoine utilization protein EutC; Validated; Region: PRK08291 394003241 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 394003242 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 394003243 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 394003244 tetramer interface [polypeptide binding]; other site 394003245 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394003246 catalytic residue [active] 394003247 succinic semialdehyde dehydrogenase; Region: PLN02278 394003248 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 394003249 tetramerization interface [polypeptide binding]; other site 394003250 NAD(P) binding site [chemical binding]; other site 394003251 catalytic residues [active] 394003252 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 394003253 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394003254 Coenzyme A binding pocket [chemical binding]; other site 394003255 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 394003256 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394003257 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 394003258 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 394003259 homotrimer interaction site [polypeptide binding]; other site 394003260 putative active site [active] 394003261 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 394003262 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 394003263 dimer interface [polypeptide binding]; other site 394003264 active site 394003265 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 394003266 substrate binding site [chemical binding]; other site 394003267 catalytic residue [active] 394003268 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394003269 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394003270 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394003271 dimerization interface [polypeptide binding]; other site 394003272 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 394003273 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 394003274 NAD binding site [chemical binding]; other site 394003275 catalytic residues [active] 394003276 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 394003277 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 394003278 putative DNA binding site [nucleotide binding]; other site 394003279 putative Zn2+ binding site [ion binding]; other site 394003280 AsnC family; Region: AsnC_trans_reg; pfam01037 394003281 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 394003282 active site 394003283 substrate binding site [chemical binding]; other site 394003284 ATP binding site [chemical binding]; other site 394003285 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 394003286 Aspartase; Region: Aspartase; cd01357 394003287 active sites [active] 394003288 tetramer interface [polypeptide binding]; other site 394003289 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 394003290 Uncharacterized ALDH (y4uC) with similarity to Tortula ruralis aldehyde dehydrogenase ALDH21A1; Region: ALDH_y4uC; cd07149 394003291 NAD(P) binding site [chemical binding]; other site 394003292 catalytic residues [active] 394003293 homoserine dehydrogenase; Provisional; Region: PRK06270 394003294 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 394003295 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 394003296 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394003297 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 394003298 putative DNA binding site [nucleotide binding]; other site 394003299 AsnC family; Region: AsnC_trans_reg; pfam01037 394003300 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 394003301 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 394003302 active site 394003303 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 394003304 dimer interface [polypeptide binding]; other site 394003305 substrate binding site [chemical binding]; other site 394003306 catalytic residues [active] 394003307 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 394003308 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 394003309 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 394003310 homotrimer interaction site [polypeptide binding]; other site 394003311 putative active site [active] 394003312 Domain of unknown function (DUF305); Region: DUF305; cl17794 394003313 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 394003314 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 394003315 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 394003316 [2Fe-2S] cluster binding site [ion binding]; other site 394003317 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 394003318 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 394003319 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394003320 cyclase homology domain; Region: CHD; cd07302 394003321 nucleotidyl binding site; other site 394003322 metal binding site [ion binding]; metal-binding site 394003323 dimer interface [polypeptide binding]; other site 394003324 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 394003325 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 394003326 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 394003327 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 394003328 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 394003329 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 394003330 Predicted membrane protein [Function unknown]; Region: COG1238 394003331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3544 394003332 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 394003333 dimerization interface [polypeptide binding]; other site 394003334 hypothetical protein; Provisional; Region: PRK06753 394003335 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 394003336 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 394003337 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 394003338 Soluble P-type ATPase [General function prediction only]; Region: COG4087 394003339 H+ Antiporter protein; Region: 2A0121; TIGR00900 394003340 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394003341 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 394003342 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 394003343 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 394003344 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394003345 Walker A/P-loop; other site 394003346 ATP binding site [chemical binding]; other site 394003347 Q-loop/lid; other site 394003348 ABC transporter signature motif; other site 394003349 Walker B; other site 394003350 D-loop; other site 394003351 H-loop/switch region; other site 394003352 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 394003353 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 394003354 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394003355 Walker A/P-loop; other site 394003356 ATP binding site [chemical binding]; other site 394003357 Q-loop/lid; other site 394003358 ABC transporter signature motif; other site 394003359 Walker B; other site 394003360 D-loop; other site 394003361 H-loop/switch region; other site 394003362 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394003363 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 394003364 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394003365 dimer interface [polypeptide binding]; other site 394003366 conserved gate region; other site 394003367 putative PBP binding loops; other site 394003368 ABC-ATPase subunit interface; other site 394003369 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 394003370 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394003371 dimer interface [polypeptide binding]; other site 394003372 conserved gate region; other site 394003373 putative PBP binding loops; other site 394003374 ABC-ATPase subunit interface; other site 394003375 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 394003376 Multicopper oxidase; Region: Cu-oxidase; pfam00394 394003377 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 394003378 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 394003379 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 394003380 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 394003381 DNA binding residues [nucleotide binding] 394003382 dimer interface [polypeptide binding]; other site 394003383 copper binding site [ion binding]; other site 394003384 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 394003385 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 394003386 catalytic loop [active] 394003387 iron binding site [ion binding]; other site 394003388 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 394003389 FAD binding pocket [chemical binding]; other site 394003390 FAD binding motif [chemical binding]; other site 394003391 phosphate binding motif [ion binding]; other site 394003392 beta-alpha-beta structure motif; other site 394003393 NAD binding pocket [chemical binding]; other site 394003394 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 394003395 metal-binding site [ion binding] 394003396 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 394003397 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 394003398 metal-binding site [ion binding] 394003399 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 394003400 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394003401 motif II; other site 394003402 Transcriptional regulators [Transcription]; Region: FadR; COG2186 394003403 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394003404 DNA-binding site [nucleotide binding]; DNA binding site 394003405 FCD domain; Region: FCD; pfam07729 394003406 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 394003407 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 394003408 putative metal binding site [ion binding]; other site 394003409 putative homodimer interface [polypeptide binding]; other site 394003410 putative homotetramer interface [polypeptide binding]; other site 394003411 putative homodimer-homodimer interface [polypeptide binding]; other site 394003412 putative allosteric switch controlling residues; other site 394003413 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 394003414 HWE histidine kinase; Region: HWE_HK; smart00911 394003415 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 394003416 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 394003417 ligand binding site [chemical binding]; other site 394003418 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394003419 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394003420 Walker A/P-loop; other site 394003421 ATP binding site [chemical binding]; other site 394003422 Q-loop/lid; other site 394003423 ABC transporter signature motif; other site 394003424 Walker B; other site 394003425 D-loop; other site 394003426 H-loop/switch region; other site 394003427 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394003428 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394003429 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394003430 TM-ABC transporter signature motif; other site 394003431 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 394003432 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 394003433 DNA binding residues [nucleotide binding] 394003434 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 394003435 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394003436 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394003437 active site 394003438 catalytic tetrad [active] 394003439 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 394003440 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 394003441 DhnA-type fructose-1,6-bisphosphate aldolase and related enzymes [Carbohydrate transport and metabolism]; Region: FbaB; COG1830 394003442 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 394003443 putative active site; other site 394003444 catalytic residue [active] 394003445 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 394003446 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 394003447 putative N- and C-terminal domain interface [polypeptide binding]; other site 394003448 putative active site [active] 394003449 MgATP binding site [chemical binding]; other site 394003450 catalytic site [active] 394003451 metal binding site [ion binding]; metal-binding site 394003452 putative xylulose binding site [chemical binding]; other site 394003453 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 394003454 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 394003455 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 394003456 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 394003457 DNA-binding site [nucleotide binding]; DNA binding site 394003458 RNA-binding motif; other site 394003459 PAS fold; Region: PAS_4; pfam08448 394003460 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394003461 putative active site [active] 394003462 heme pocket [chemical binding]; other site 394003463 PAS fold; Region: PAS_4; pfam08448 394003464 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 394003465 HWE histidine kinase; Region: HWE_HK; smart00911 394003466 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394003467 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394003468 putative DNA binding site [nucleotide binding]; other site 394003469 putative Zn2+ binding site [ion binding]; other site 394003470 AsnC family; Region: AsnC_trans_reg; pfam01037 394003471 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 394003472 putative active site [active] 394003473 putative metal binding site [ion binding]; other site 394003474 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 394003475 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 394003476 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394003477 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 394003478 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 394003479 catalytic loop [active] 394003480 iron binding site [ion binding]; other site 394003481 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 394003482 Cytochrome P450; Region: p450; cl12078 394003483 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394003484 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394003485 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 394003486 substrate binding pocket [chemical binding]; other site 394003487 dimerization interface [polypeptide binding]; other site 394003488 Transcriptional regulators [Transcription]; Region: GntR; COG1802 394003489 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394003490 DNA-binding site [nucleotide binding]; DNA binding site 394003491 FCD domain; Region: FCD; pfam07729 394003492 YCII-related domain; Region: YCII; cl00999 394003493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 394003494 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 394003495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 394003496 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394003497 DNA-binding site [nucleotide binding]; DNA binding site 394003498 Transcriptional regulators [Transcription]; Region: GntR; COG1802 394003499 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 394003500 DNA-binding site [nucleotide binding]; DNA binding site 394003501 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 394003502 aconitate hydratase; Provisional; Region: acnA; PRK12881 394003503 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 394003504 substrate binding site [chemical binding]; other site 394003505 ligand binding site [chemical binding]; other site 394003506 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 394003507 substrate binding site [chemical binding]; other site 394003508 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 394003509 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 394003510 putative active site [active] 394003511 catalytic residue [active] 394003512 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 394003513 SPFH domain / Band 7 family; Region: Band_7; pfam01145 394003514 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394003515 HAMP domain; Region: HAMP; pfam00672 394003516 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394003517 dimer interface [polypeptide binding]; other site 394003518 phosphorylation site [posttranslational modification] 394003519 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394003520 ATP binding site [chemical binding]; other site 394003521 Mg2+ binding site [ion binding]; other site 394003522 G-X-G motif; other site 394003523 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394003524 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394003525 active site 394003526 phosphorylation site [posttranslational modification] 394003527 intermolecular recognition site; other site 394003528 dimerization interface [polypeptide binding]; other site 394003529 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394003530 DNA binding site [nucleotide binding] 394003531 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 394003532 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 394003533 SelR domain; Region: SelR; pfam01641 394003534 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 394003535 Transcriptional regulators [Transcription]; Region: MarR; COG1846 394003536 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394003537 putative Zn2+ binding site [ion binding]; other site 394003538 putative DNA binding site [nucleotide binding]; other site 394003539 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394003540 non-specific DNA binding site [nucleotide binding]; other site 394003541 salt bridge; other site 394003542 sequence-specific DNA binding site [nucleotide binding]; other site 394003543 HipA N-terminal domain; Region: Couple_hipA; cl11853 394003544 HipA-like N-terminal domain; Region: HipA_N; pfam07805 394003545 HipA-like C-terminal domain; Region: HipA_C; pfam07804 394003546 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 394003547 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 394003548 Transposase domain (DUF772); Region: DUF772; pfam05598 394003549 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 394003550 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 394003551 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 394003552 Homeodomain-like domain; Region: HTH_23; pfam13384 394003553 Winged helix-turn helix; Region: HTH_29; pfam13551 394003554 Homeodomain-like domain; Region: HTH_32; pfam13565 394003555 Winged helix-turn helix; Region: HTH_33; pfam13592 394003556 transposase; Validated; Region: PRK08181 394003557 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394003558 Walker A motif; other site 394003559 ATP binding site [chemical binding]; other site 394003560 Integrase core domain; Region: rve; pfam00665 394003561 DDE superfamily endonuclease; Region: DDE_3; pfam13358 394003562 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 394003563 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 394003564 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 394003565 putative active site [active] 394003566 putative NTP binding site [chemical binding]; other site 394003567 putative nucleic acid binding site [nucleotide binding]; other site 394003568 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 394003569 DDE superfamily endonuclease; Region: DDE_5; cl17874 394003570 DDE superfamily endonuclease; Region: DDE_5; pfam13546 394003571 flagellum-specific ATP synthase; Validated; Region: fliI; PRK07960 394003572 PAS fold; Region: PAS_4; pfam08448 394003573 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394003574 putative active site [active] 394003575 heme pocket [chemical binding]; other site 394003576 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394003577 PAS fold; Region: PAS_3; pfam08447 394003578 putative active site [active] 394003579 heme pocket [chemical binding]; other site 394003580 PAS domain S-box; Region: sensory_box; TIGR00229 394003581 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394003582 putative active site [active] 394003583 heme pocket [chemical binding]; other site 394003584 PAS fold; Region: PAS_4; pfam08448 394003585 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394003586 PAS domain; Region: PAS_9; pfam13426 394003587 putative active site [active] 394003588 heme pocket [chemical binding]; other site 394003589 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394003590 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394003591 metal binding site [ion binding]; metal-binding site 394003592 active site 394003593 I-site; other site 394003594 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394003595 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 394003596 active site 394003597 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 394003598 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 394003599 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 394003600 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 394003601 Uncharacterized conserved protein [Function unknown]; Region: COG1432 394003602 LabA_like proteins; Region: LabA; cd10911 394003603 putative metal binding site [ion binding]; other site 394003604 Predicted integral membrane protein [Function unknown]; Region: COG5616 394003605 potential frameshift: common BLAST hit: gi|16264632|ref|NP_437424.1| glycosyltransferase, forming alpha glycosyl linkages 394003606 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 394003607 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 394003608 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394003609 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 394003610 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 394003611 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 394003612 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 394003613 [2Fe-2S] cluster binding site [ion binding]; other site 394003614 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394003615 cyclase homology domain; Region: CHD; cd07302 394003616 nucleotidyl binding site; other site 394003617 metal binding site [ion binding]; metal-binding site 394003618 dimer interface [polypeptide binding]; other site 394003619 Copper binding periplasmic protein CusF; Region: CusF_Ec; cl02363 394003620 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 394003621 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 394003622 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 394003623 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 394003624 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 394003625 Predicted membrane protein [Function unknown]; Region: COG1238 394003626 Domain of unknown function (DUF305); Region: DUF305; cl17794 394003627 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 394003628 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 394003629 potential frameshift: common BLAST hit: gi|116251654|ref|YP_767492.1| multicopper oxidase 394003630 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 394003631 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 394003632 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 394003633 Multicopper oxidase; Region: Cu-oxidase; pfam00394 394003634 Cytochrome C' Region: Cytochrom_C_2; cl01610 394003635 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 394003636 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 394003637 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 394003638 DNA binding residues [nucleotide binding] 394003639 dimer interface [polypeptide binding]; other site 394003640 copper binding site [ion binding]; other site 394003641 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 394003642 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 394003643 metal-binding site [ion binding] 394003644 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 394003645 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 394003646 metal-binding site [ion binding] 394003647 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 394003648 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394003649 cyclase homology domain; Region: CHD; cd07302 394003650 nucleotidyl binding site; other site 394003651 metal binding site [ion binding]; metal-binding site 394003652 dimer interface [polypeptide binding]; other site 394003653 Predicted integral membrane protein [Function unknown]; Region: COG5616 394003654 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394003655 TPR motif; other site 394003656 TPR repeat; Region: TPR_11; pfam13414 394003657 binding surface 394003658 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394003659 binding surface 394003660 TPR motif; other site 394003661 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 394003662 metal-binding site [ion binding] 394003663 YtkA-like; Region: YtkA; pfam13115 394003664 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 394003665 HlyD family secretion protein; Region: HlyD_3; pfam13437 394003666 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 394003667 potential frameshift: common BLAST hit: gi|190891810|ref|YP_001978352.1| multicopper oxidase 394003668 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 394003669 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 394003670 Multicopper oxidase; Region: Cu-oxidase; pfam00394 394003671 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 394003672 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 394003673 Protein of unknown function, DUF; Region: DUF411; cl01142 394003674 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 394003675 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 394003676 catalytic residues [active] 394003677 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 394003678 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 394003679 Cu(I) binding site [ion binding]; other site 394003680 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 394003681 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 394003682 catalytic residues [active] 394003683 Methyltransferase domain; Region: Methyltransf_11; pfam08241 394003684 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 394003685 DDE superfamily endonuclease; Region: DDE_3; pfam13358 394003686 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 394003687 Homeodomain-like domain; Region: HTH_23; cl17451 394003688 Winged helix-turn helix; Region: HTH_29; pfam13551 394003689 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 394003690 Putative transposase; Region: Y2_Tnp; pfam04986 394003691 integron integrase; Region: integrase_gron; TIGR02249 394003692 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 394003693 Int/Topo IB signature motif; other site 394003694 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 394003695 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 394003696 dimer interface [polypeptide binding]; other site 394003697 active site 394003698 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394003699 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394003700 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 394003701 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 394003702 HlyD family secretion protein; Region: HlyD_3; pfam13437 394003703 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 394003704 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394003705 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394003706 short chain dehydrogenase; Provisional; Region: PRK06179 394003707 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 394003708 NADP binding site [chemical binding]; other site 394003709 active site 394003710 steroid binding site; other site 394003711 Homeodomain-like domain; Region: HTH_23; pfam13384 394003712 Transposase; Region: DDE_Tnp_ISL3; pfam01610 394003713 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 394003714 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 394003715 Predicted signal transduction protein containing a membrane domain, an EAL and a GGDEF domain [Signal transduction mechanisms]; Region: COG5001 394003716 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 394003717 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394003718 metal binding site [ion binding]; metal-binding site 394003719 active site 394003720 I-site; other site 394003721 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394003722 PilZ domain; Region: PilZ; cl01260 394003723 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 394003724 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 394003725 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 394003726 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 394003727 Transcriptional regulators [Transcription]; Region: GntR; COG1802 394003728 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394003729 DNA-binding site [nucleotide binding]; DNA binding site 394003730 FCD domain; Region: FCD; pfam07729 394003731 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 394003732 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 394003733 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 394003734 DctM-like transporters; Region: DctM; pfam06808 394003735 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 394003736 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 394003737 FAD binding domain; Region: FAD_binding_4; pfam01565 394003738 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 394003739 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 394003740 inhibitor site; inhibition site 394003741 active site 394003742 dimer interface [polypeptide binding]; other site 394003743 catalytic residue [active] 394003744 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394003745 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394003746 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394003747 putative substrate translocation pore; other site 394003748 Major Facilitator Superfamily; Region: MFS_1; pfam07690 394003749 OsmC-like protein; Region: OsmC; cl00767 394003750 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 394003751 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 394003752 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 394003753 protein binding site [polypeptide binding]; other site 394003754 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 394003755 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394003756 non-specific DNA binding site [nucleotide binding]; other site 394003757 salt bridge; other site 394003758 sequence-specific DNA binding site [nucleotide binding]; other site 394003759 HipA N-terminal domain; Region: Couple_hipA; pfam13657 394003760 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 394003761 HipA-like N-terminal domain; Region: HipA_N; pfam07805 394003762 HipA-like C-terminal domain; Region: HipA_C; pfam07804 394003763 DNA-damage-inducible protein J [DNA replication, recombination, and repair]; Region: RelB; COG3077 394003764 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 394003765 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 394003766 Predicted periplasmic protein [Function unknown]; Region: COG3904 394003767 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 394003768 active site 394003769 catalytic residues [active] 394003770 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 394003771 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394003772 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394003773 non-specific DNA binding site [nucleotide binding]; other site 394003774 salt bridge; other site 394003775 sequence-specific DNA binding site [nucleotide binding]; other site 394003776 HipA N-terminal domain; Region: Couple_hipA; pfam13657 394003777 HipA-like N-terminal domain; Region: HipA_N; pfam07805 394003778 HipA-like C-terminal domain; Region: HipA_C; pfam07804 394003779 integron integrase; Region: integrase_gron; TIGR02249 394003780 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 394003781 Int/Topo IB signature motif; other site 394003782 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 394003783 Putative transposase; Region: Y2_Tnp; pfam04986 394003784 Homeodomain-like domain; Region: HTH_23; cl17451 394003785 Winged helix-turn helix; Region: HTH_29; pfam13551 394003786 DDE superfamily endonuclease; Region: DDE_3; pfam13358 394003787 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 394003788 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 394003789 Predicted oxidoreductase [General function prediction only]; Region: COG3573 394003790 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 394003791 PhoP regulatory network protein YrbL; Region: YrbL-PhoP_reg; cl17608 394003792 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 394003793 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 394003794 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 394003795 Walker A/P-loop; other site 394003796 ATP binding site [chemical binding]; other site 394003797 Q-loop/lid; other site 394003798 ABC transporter signature motif; other site 394003799 Walker B; other site 394003800 D-loop; other site 394003801 H-loop/switch region; other site 394003802 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 394003803 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 394003804 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 394003805 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394003806 Walker A motif; other site 394003807 ATP binding site [chemical binding]; other site 394003808 Walker B motif; other site 394003809 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394003810 Helix-turn-helix domain; Region: HTH_28; pfam13518 394003811 Winged helix-turn helix; Region: HTH_29; pfam13551 394003812 Homeodomain-like domain; Region: HTH_32; pfam13565 394003813 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 394003814 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 394003815 catalytic residues [active] 394003816 catalytic nucleophile [active] 394003817 Recombinase; Region: Recombinase; pfam07508 394003818 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394003819 Integrase core domain; Region: rve; pfam00665 394003820 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 394003821 Transposase; Region: HTH_Tnp_1; pfam01527 394003822 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 394003823 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 394003824 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 394003825 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 394003826 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 394003827 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 394003828 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 394003829 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 394003830 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394003831 Walker A motif; other site 394003832 ATP binding site [chemical binding]; other site 394003833 Walker B motif; other site 394003834 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 394003835 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394003836 putative DNA binding site [nucleotide binding]; other site 394003837 putative Zn2+ binding site [ion binding]; other site 394003838 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394003839 Integrase core domain; Region: rve; pfam00665 394003840 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394003841 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 394003842 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 394003843 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 394003844 ABC-2 type transporter; Region: ABC2_membrane; cl17235 394003845 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 394003846 GSCFA family; Region: GSCFA; pfam08885 394003847 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 394003848 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394003849 Coenzyme A binding pocket [chemical binding]; other site 394003850 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 394003851 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 394003852 ABC-2 type transporter; Region: ABC2_membrane; cl17235 394003853 UDP-N-acetylglucosamine 4,6-dehydratase; Region: PseB; TIGR03589 394003854 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 394003855 NAD(P) binding site [chemical binding]; other site 394003856 homodimer interface [polypeptide binding]; other site 394003857 substrate binding site [chemical binding]; other site 394003858 active site 394003859 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 394003860 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 394003861 inhibitor-cofactor binding pocket; inhibition site 394003862 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394003863 catalytic residue [active] 394003864 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 394003865 ligand binding site; other site 394003866 tetramer interface; other site 394003867 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 394003868 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 394003869 pseudaminic acid synthase; Region: PseI; TIGR03586 394003870 NeuB family; Region: NeuB; pfam03102 394003871 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 394003872 NeuB binding interface [polypeptide binding]; other site 394003873 putative substrate binding site [chemical binding]; other site 394003874 Chain length determinant protein; Region: Wzz; cl15801 394003875 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsE; COG3524 394003876 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 394003877 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 394003878 Walker A/P-loop; other site 394003879 ATP binding site [chemical binding]; other site 394003880 Q-loop/lid; other site 394003881 ABC transporter signature motif; other site 394003882 Walker B; other site 394003883 D-loop; other site 394003884 H-loop/switch region; other site 394003885 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 394003886 ABC-2 type transporter; Region: ABC2_membrane; cl17235 394003887 potential frameshift: common BLAST hit: gi|150377111|ref|YP_001313707.1| capsule polysaccharide biosynthesis protein 394003888 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 394003889 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 394003890 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 394003891 active site 394003892 NTP binding site [chemical binding]; other site 394003893 metal binding triad [ion binding]; metal-binding site 394003894 antibiotic binding site [chemical binding]; other site 394003895 Higher Eukarytoes and Prokaryotes Nucleotide-binding domain; Region: HEPN; smart00748 394003896 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 394003897 Uncharacterized conserved protein [Function unknown]; Region: COG5642 394003898 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 394003899 Uncharacterized conserved protein [Function unknown]; Region: COG5654 394003900 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394003901 cyclase homology domain; Region: CHD; cd07302 394003902 nucleotidyl binding site; other site 394003903 metal binding site [ion binding]; metal-binding site 394003904 dimer interface [polypeptide binding]; other site 394003905 Predicted integral membrane protein [Function unknown]; Region: COG5616 394003906 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 394003907 TPR motif; other site 394003908 binding surface 394003909 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394003910 TPR motif; other site 394003911 binding surface 394003912 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 394003913 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 394003914 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; cl16942 394003915 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394003916 AAA domain; Region: AAA_22; pfam13401 394003917 Walker A motif; other site 394003918 ATP binding site [chemical binding]; other site 394003919 Walker B motif; other site 394003920 arginine finger; other site 394003921 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 394003922 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 394003923 Predicted transcriptional regulator [Transcription]; Region: COG3905 394003924 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 394003925 Transposase; Region: HTH_Tnp_1; pfam01527 394003926 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 394003927 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 394003928 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 394003929 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 394003930 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 394003931 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 394003932 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 394003933 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 394003934 Protein of unknown function (DUF3680); Region: DUF3680; pfam12441 394003935 PemK-like protein; Region: PemK; cl00995 394003936 Rv0623-like transcription factor; Region: PSK_trans_fac; pfam07704 394003937 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 394003938 putative active site [active] 394003939 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 394003940 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 394003941 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 394003942 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 394003943 substrate binding site [chemical binding]; other site 394003944 ATP binding site [chemical binding]; other site 394003945 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 394003946 DNA binding residues [nucleotide binding] 394003947 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394003948 Integrase core domain; Region: rve; pfam00665 394003949 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 394003950 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 394003951 catalytic residues [active] 394003952 catalytic nucleophile [active] 394003953 Recombinase; Region: Recombinase; pfam07508 394003954 Helix-turn-helix domain; Region: HTH_28; pfam13518 394003955 Winged helix-turn helix; Region: HTH_29; pfam13551 394003956 Homeodomain-like domain; Region: HTH_32; pfam13565 394003957 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394003958 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 394003959 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 394003960 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394003961 Walker A motif; other site 394003962 ATP binding site [chemical binding]; other site 394003963 Walker B motif; other site 394003964 DDE superfamily endonuclease; Region: DDE_3; pfam13358 394003965 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 394003966 Homeodomain-like domain; Region: HTH_23; pfam13384 394003967 Winged helix-turn helix; Region: HTH_29; pfam13551 394003968 Homeodomain-like domain; Region: HTH_32; pfam13565 394003969 Winged helix-turn helix; Region: HTH_33; pfam13592 394003970 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 394003971 HicB family; Region: HicB; pfam05534 394003972 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394003973 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394003974 non-specific DNA binding site [nucleotide binding]; other site 394003975 salt bridge; other site 394003976 sequence-specific DNA binding site [nucleotide binding]; other site 394003977 Integral membrane protein TerC family; Region: TerC; cl10468 394003978 Hint domain; Region: Hint_2; pfam13403 394003979 potential frameshift: common BLAST hit: gi|16263669|ref|NP_436462.1| integrase-like protein 394003980 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 394003981 active site 394003982 Int/Topo IB signature motif; other site 394003983 DNA binding site [nucleotide binding] 394003984 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 394003985 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 394003986 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 394003987 putative active site [active] 394003988 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4423 394003989 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 394003990 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 394003991 Transposase domain (DUF772); Region: DUF772; pfam05598 394003992 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 394003993 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 394003994 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 394003995 Transposase domain (DUF772); Region: DUF772; pfam05598 394003996 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 394003997 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 394003998 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 394003999 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 394004000 Type IV secretory pathway, VirB3 components [Intracellular trafficking and secretion]; Region: VirB3; COG3702 394004001 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 394004002 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 394004003 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 394004004 Type IV secretion system proteins; Region: T4SS; pfam07996 394004005 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 394004006 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 394004007 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 394004008 VirB7 interaction site; other site 394004009 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 394004010 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 394004011 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 394004012 Walker A motif; other site 394004013 hexamer interface [polypeptide binding]; other site 394004014 ATP binding site [chemical binding]; other site 394004015 Walker B motif; other site 394004016 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 394004017 Toprim domain; Region: Toprim_3; pfam13362 394004018 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 394004019 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 394004020 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 394004021 oligomeric interface; other site 394004022 putative active site [active] 394004023 homodimer interface [polypeptide binding]; other site 394004024 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 394004025 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 394004026 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 394004027 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 394004028 putative active site [active] 394004029 Uncharacterized conserved protein [Function unknown]; Region: COG5489 394004030 conjugal transfer coupling protein TraG; Provisional; Region: PRK13822 394004031 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 394004032 Walker A motif; other site 394004033 ATP binding site [chemical binding]; other site 394004034 Walker B motif; other site 394004035 Conjugal transfer protein TraD; Region: TraD; pfam06412 394004036 TraC-like protein; Region: TraC; pfam07820 394004037 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 394004038 MobA/MobL family; Region: MobA_MobL; pfam03389 394004039 AAA domain; Region: AAA_30; pfam13604 394004040 Family description; Region: UvrD_C_2; pfam13538 394004041 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 394004042 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394004043 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394004044 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004045 dimer interface [polypeptide binding]; other site 394004046 conserved gate region; other site 394004047 putative PBP binding loops; other site 394004048 ABC-ATPase subunit interface; other site 394004049 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 394004050 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004051 dimer interface [polypeptide binding]; other site 394004052 conserved gate region; other site 394004053 putative PBP binding loops; other site 394004054 ABC-ATPase subunit interface; other site 394004055 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 394004056 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394004057 Walker A/P-loop; other site 394004058 ATP binding site [chemical binding]; other site 394004059 Q-loop/lid; other site 394004060 ABC transporter signature motif; other site 394004061 Walker B; other site 394004062 D-loop; other site 394004063 H-loop/switch region; other site 394004064 TOBE domain; Region: TOBE_2; pfam08402 394004065 Transcriptional regulators [Transcription]; Region: GntR; COG1802 394004066 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394004067 DNA-binding site [nucleotide binding]; DNA binding site 394004068 FCD domain; Region: FCD; pfam07729 394004069 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 394004070 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 394004071 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394004072 catalytic residue [active] 394004073 acetolactate synthase catalytic subunit; Validated; Region: PRK06112 394004074 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 394004075 PYR/PP interface [polypeptide binding]; other site 394004076 dimer interface [polypeptide binding]; other site 394004077 TPP binding site [chemical binding]; other site 394004078 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 394004079 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 394004080 TPP-binding site [chemical binding]; other site 394004081 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 394004082 classical (c) SDRs; Region: SDR_c; cd05233 394004083 NAD(P) binding site [chemical binding]; other site 394004084 active site 394004085 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394004086 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 394004087 active site 394004088 phosphorylation site [posttranslational modification] 394004089 intermolecular recognition site; other site 394004090 dimerization interface [polypeptide binding]; other site 394004091 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394004092 DNA binding site [nucleotide binding] 394004093 Predicted nucleotidyltransferases [General function prediction only]; Region: COG1708 394004094 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394004095 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 394004096 active site 394004097 phosphorylation site [posttranslational modification] 394004098 intermolecular recognition site; other site 394004099 dimerization interface [polypeptide binding]; other site 394004100 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394004101 DNA binding site [nucleotide binding] 394004102 hypothetical protein; Provisional; Region: PRK07505 394004103 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 394004104 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394004105 catalytic residue [active] 394004106 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 394004107 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 394004108 Walker A/P-loop; other site 394004109 ATP binding site [chemical binding]; other site 394004110 Q-loop/lid; other site 394004111 ABC transporter signature motif; other site 394004112 Walker B; other site 394004113 D-loop; other site 394004114 H-loop/switch region; other site 394004115 HlyD family secretion protein; Region: HlyD; pfam00529 394004116 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 394004117 HlyD family secretion protein; Region: HlyD_3; pfam13437 394004118 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394004119 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 394004120 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394004121 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394004122 putative DNA binding site [nucleotide binding]; other site 394004123 putative Zn2+ binding site [ion binding]; other site 394004124 AsnC family; Region: AsnC_trans_reg; pfam01037 394004125 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394004126 TPR motif; other site 394004127 binding surface 394004128 TPR repeat; Region: TPR_11; pfam13414 394004129 MarR family; Region: MarR_2; pfam12802 394004130 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 394004131 Walker A motif; other site 394004132 ATP binding site [chemical binding]; other site 394004133 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 394004134 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 394004135 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 394004136 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 394004137 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 394004138 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 394004139 ATP binding site [chemical binding]; other site 394004140 Walker A motif; other site 394004141 hexamer interface [polypeptide binding]; other site 394004142 Walker B motif; other site 394004143 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 394004144 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 394004145 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 394004146 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 394004147 active site 394004148 phosphorylation site [posttranslational modification] 394004149 dimerization interface [polypeptide binding]; other site 394004150 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 394004151 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 394004152 TadE-like protein; Region: TadE; pfam07811 394004153 TadE-like protein; Region: TadE; pfam07811 394004154 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 394004155 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 394004156 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 394004157 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 394004158 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 394004159 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 394004160 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 394004161 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 394004162 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 394004163 Flp/Fap pilin component; Region: Flp_Fap; cl01585 394004164 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 394004165 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394004166 ABC transporter signature motif; other site 394004167 Walker B; other site 394004168 D-loop; other site 394004169 H-loop/switch region; other site 394004170 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 394004171 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 394004172 DNA binding site [nucleotide binding] 394004173 active site 394004174 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394004175 cyclase homology domain; Region: CHD; cd07302 394004176 nucleotidyl binding site; other site 394004177 metal binding site [ion binding]; metal-binding site 394004178 dimer interface [polypeptide binding]; other site 394004179 GYD domain; Region: GYD; pfam08734 394004180 BA14K-like protein; Region: BA14K; pfam07886 394004181 BA14K-like protein; Region: BA14K; pfam07886 394004182 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 394004183 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 394004184 EamA-like transporter family; Region: EamA; pfam00892 394004185 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 394004186 EamA-like transporter family; Region: EamA; pfam00892 394004187 glycogen synthase; Provisional; Region: glgA; PRK00654 394004188 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 394004189 ADP-binding pocket [chemical binding]; other site 394004190 homodimer interface [polypeptide binding]; other site 394004191 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 394004192 substrate binding site [chemical binding]; other site 394004193 hydroperoxidase II; Provisional; Region: katE; PRK11249 394004194 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 394004195 tetramer interface [polypeptide binding]; other site 394004196 heme binding pocket [chemical binding]; other site 394004197 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 394004198 domain interactions; other site 394004199 ATP-dependent DNA ligase; Reviewed; Region: ligC; PRK08224 394004200 Adenylation domain of Mycobacterium tuberculosis LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigC; cd07905 394004201 active site 394004202 DNA binding site [nucleotide binding] 394004203 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigC is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigC; cd07970 394004204 DNA binding site [nucleotide binding] 394004205 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 394004206 active site 394004207 DNA binding site [nucleotide binding] 394004208 Uncharacterized conserved protein [Function unknown]; Region: COG1415 394004209 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 394004210 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 394004211 glutathione s-transferase; Provisional; Region: PTZ00057 394004212 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 394004213 dimer interface [polypeptide binding]; other site 394004214 N-terminal domain interface [polypeptide binding]; other site 394004215 substrate binding pocket (H-site) [chemical binding]; other site 394004216 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 394004217 Fe-S cluster binding site [ion binding]; other site 394004218 active site 394004219 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 394004220 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 394004221 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 394004222 catalytic site [active] 394004223 active site 394004224 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 394004225 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 394004226 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 394004227 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 394004228 active site 394004229 catalytic site [active] 394004230 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 394004231 FOG: CBS domain [General function prediction only]; Region: COG0517 394004232 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 394004233 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 394004234 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394004235 S-adenosylmethionine binding site [chemical binding]; other site 394004236 FtsJ-like methyltransferase; Region: FtsJ; cl17430 394004237 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 394004238 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 394004239 putative ligand binding residues [chemical binding]; other site 394004240 Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_f; cd01139 394004241 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 394004242 putative ligand binding residues [chemical binding]; other site 394004243 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 394004244 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 394004245 ABC-ATPase subunit interface; other site 394004246 dimer interface [polypeptide binding]; other site 394004247 putative PBP binding regions; other site 394004248 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 394004249 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 394004250 Walker A/P-loop; other site 394004251 ATP binding site [chemical binding]; other site 394004252 Q-loop/lid; other site 394004253 ABC transporter signature motif; other site 394004254 Walker B; other site 394004255 D-loop; other site 394004256 H-loop/switch region; other site 394004257 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 394004258 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394004259 Walker A/P-loop; other site 394004260 ATP binding site [chemical binding]; other site 394004261 Q-loop/lid; other site 394004262 ABC transporter signature motif; other site 394004263 Walker B; other site 394004264 D-loop; other site 394004265 H-loop/switch region; other site 394004266 TOBE domain; Region: TOBE_2; pfam08402 394004267 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 394004268 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 394004269 substrate binding [chemical binding]; other site 394004270 active site 394004271 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 394004272 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394004273 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004274 dimer interface [polypeptide binding]; other site 394004275 conserved gate region; other site 394004276 putative PBP binding loops; other site 394004277 ABC-ATPase subunit interface; other site 394004278 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004279 dimer interface [polypeptide binding]; other site 394004280 conserved gate region; other site 394004281 putative PBP binding loops; other site 394004282 ABC-ATPase subunit interface; other site 394004283 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394004284 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394004285 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394004286 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394004287 DNA binding site [nucleotide binding] 394004288 domain linker motif; other site 394004289 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 394004290 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 394004291 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 394004292 dimer interface [polypeptide binding]; other site 394004293 active site residues [active] 394004294 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 394004295 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 394004296 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 394004297 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 394004298 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 394004299 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 394004300 putative NAD(P) binding site [chemical binding]; other site 394004301 putative substrate binding site [chemical binding]; other site 394004302 catalytic Zn binding site [ion binding]; other site 394004303 structural Zn binding site [ion binding]; other site 394004304 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 394004305 nudix motif; other site 394004306 siroheme synthase, N-terminal domain; Region: cysG_Nterm; TIGR01470 394004307 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 394004308 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 394004309 Uroporphyrinogen-III methylase [Coenzyme metabolism]; Region: CysG; COG0007 394004310 homodimer interface [polypeptide binding]; other site 394004311 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 394004312 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 394004313 [4Fe-4S] binding site [ion binding]; other site 394004314 molybdopterin cofactor binding site; other site 394004315 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 394004316 molybdopterin cofactor binding site; other site 394004317 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 394004318 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 394004319 [2Fe-2S] cluster binding site [ion binding]; other site 394004320 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 394004321 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394004322 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 394004323 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 394004324 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 394004325 nitrate transport ATP-binding subunits C and D; Region: ntrCD; TIGR01184 394004326 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 394004327 NMT1-like family; Region: NMT1_2; pfam13379 394004328 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 394004329 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394004330 active site 394004331 phosphorylation site [posttranslational modification] 394004332 intermolecular recognition site; other site 394004333 ANTAR domain; Region: ANTAR; pfam03861 394004334 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide acyltransferase (E2) component, and related enzymes [Energy production and conversion]; Region: AceF; COG0508 394004335 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 394004336 E3 interaction surface; other site 394004337 lipoyl attachment site [posttranslational modification]; other site 394004338 e3 binding domain; Region: E3_binding; pfam02817 394004339 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 394004340 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 394004341 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 394004342 tetramer interface [polypeptide binding]; other site 394004343 TPP-binding site [chemical binding]; other site 394004344 heterodimer interface [polypeptide binding]; other site 394004345 phosphorylation loop region [posttranslational modification] 394004346 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 394004347 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 394004348 alpha subunit interface [polypeptide binding]; other site 394004349 TPP binding site [chemical binding]; other site 394004350 heterodimer interface [polypeptide binding]; other site 394004351 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 394004352 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394004353 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 394004354 putative DNA binding site [nucleotide binding]; other site 394004355 putative Zn2+ binding site [ion binding]; other site 394004356 AsnC family; Region: AsnC_trans_reg; pfam01037 394004357 PaaX-like protein; Region: PaaX; pfam07848 394004358 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 394004359 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 394004360 Uncharacterized conserved protein [Function unknown]; Region: COG3482 394004361 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394004362 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394004363 non-specific DNA binding site [nucleotide binding]; other site 394004364 salt bridge; other site 394004365 sequence-specific DNA binding site [nucleotide binding]; other site 394004366 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394004367 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394004368 dimerization interface [polypeptide binding]; other site 394004369 putative DNA binding site [nucleotide binding]; other site 394004370 putative Zn2+ binding site [ion binding]; other site 394004371 AsnC family; Region: AsnC_trans_reg; pfam01037 394004372 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394004373 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 394004374 dimerization interface [polypeptide binding]; other site 394004375 ligand binding site [chemical binding]; other site 394004376 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 394004377 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 394004378 ligand binding site [chemical binding]; other site 394004379 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394004380 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394004381 Walker A/P-loop; other site 394004382 ATP binding site [chemical binding]; other site 394004383 Q-loop/lid; other site 394004384 ABC transporter signature motif; other site 394004385 Walker B; other site 394004386 D-loop; other site 394004387 H-loop/switch region; other site 394004388 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394004389 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394004390 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394004391 TM-ABC transporter signature motif; other site 394004392 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394004393 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394004394 TM-ABC transporter signature motif; other site 394004395 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 394004396 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 394004397 DNA interaction; other site 394004398 Metal-binding active site; metal-binding site 394004399 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 394004400 Novosphingobium aromaticivorans carbohydrate kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_NaCK_like; cd07772 394004401 N- and C-terminal domain interface [polypeptide binding]; other site 394004402 putative active site [active] 394004403 putative MgATP binding site [chemical binding]; other site 394004404 putative catalytic site [active] 394004405 metal binding site [ion binding]; metal-binding site 394004406 putative carbohydrate binding site [chemical binding]; other site 394004407 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 394004408 intersubunit interface [polypeptide binding]; other site 394004409 active site 394004410 Zn2+ binding site [ion binding]; other site 394004411 isovaleryl-CoA dehydrogenase; Region: PLN02519 394004412 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 394004413 substrate binding site [chemical binding]; other site 394004414 FAD binding site [chemical binding]; other site 394004415 catalytic base [active] 394004416 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 394004417 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 394004418 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 394004419 homotrimer interaction site [polypeptide binding]; other site 394004420 putative active site [active] 394004421 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 394004422 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 394004423 ATP-grasp domain; Region: ATP-grasp_4; cl17255 394004424 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 394004425 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 394004426 carboxyltransferase (CT) interaction site; other site 394004427 biotinylation site [posttranslational modification]; other site 394004428 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 394004429 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 394004430 active site 394004431 catalytic residues [active] 394004432 metal binding site [ion binding]; metal-binding site 394004433 enoyl-CoA hydratase; Provisional; Region: PRK07468 394004434 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394004435 substrate binding site [chemical binding]; other site 394004436 oxyanion hole (OAH) forming residues; other site 394004437 trimer interface [polypeptide binding]; other site 394004438 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 394004439 Uncharacterized conserved protein [Function unknown]; Region: COG5654 394004440 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 394004441 FAD binding domain; Region: FAD_binding_4; pfam01565 394004442 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 394004443 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 394004444 Walker A/P-loop; other site 394004445 ATP binding site [chemical binding]; other site 394004446 Q-loop/lid; other site 394004447 ABC transporter signature motif; other site 394004448 Walker B; other site 394004449 D-loop; other site 394004450 H-loop/switch region; other site 394004451 TOBE-like domain; Region: TOBE_3; pfam12857 394004452 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004453 dimer interface [polypeptide binding]; other site 394004454 conserved gate region; other site 394004455 putative PBP binding loops; other site 394004456 ABC-ATPase subunit interface; other site 394004457 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 394004458 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004459 dimer interface [polypeptide binding]; other site 394004460 conserved gate region; other site 394004461 putative PBP binding loops; other site 394004462 ABC-ATPase subunit interface; other site 394004463 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 394004464 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 394004465 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 394004466 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 394004467 dimer interface [polypeptide binding]; other site 394004468 active site 394004469 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 394004470 substrate binding site [chemical binding]; other site 394004471 catalytic residue [active] 394004472 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 394004473 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394004474 substrate binding pocket [chemical binding]; other site 394004475 membrane-bound complex binding site; other site 394004476 hinge residues; other site 394004477 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004478 dimer interface [polypeptide binding]; other site 394004479 conserved gate region; other site 394004480 putative PBP binding loops; other site 394004481 ABC-ATPase subunit interface; other site 394004482 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004483 dimer interface [polypeptide binding]; other site 394004484 conserved gate region; other site 394004485 putative PBP binding loops; other site 394004486 ABC-ATPase subunit interface; other site 394004487 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 394004488 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394004489 Walker A/P-loop; other site 394004490 ATP binding site [chemical binding]; other site 394004491 Q-loop/lid; other site 394004492 ABC transporter signature motif; other site 394004493 Walker B; other site 394004494 D-loop; other site 394004495 H-loop/switch region; other site 394004496 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 394004497 homotrimer interaction site [polypeptide binding]; other site 394004498 putative active site [active] 394004499 Transcriptional regulator [Transcription]; Region: IclR; COG1414 394004500 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 394004501 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 394004502 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394004503 Walker A/P-loop; other site 394004504 ATP binding site [chemical binding]; other site 394004505 Q-loop/lid; other site 394004506 ABC transporter signature motif; other site 394004507 Walker B; other site 394004508 D-loop; other site 394004509 H-loop/switch region; other site 394004510 TOBE domain; Region: TOBE_2; pfam08402 394004511 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 394004512 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 394004513 substrate binding site [chemical binding]; other site 394004514 ATP binding site [chemical binding]; other site 394004515 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 394004516 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 394004517 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 394004518 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394004519 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004520 dimer interface [polypeptide binding]; other site 394004521 conserved gate region; other site 394004522 putative PBP binding loops; other site 394004523 ABC-ATPase subunit interface; other site 394004524 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004525 dimer interface [polypeptide binding]; other site 394004526 conserved gate region; other site 394004527 putative PBP binding loops; other site 394004528 ABC-ATPase subunit interface; other site 394004529 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394004530 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394004531 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 394004532 non-specific DNA interactions [nucleotide binding]; other site 394004533 DNA binding site [nucleotide binding] 394004534 sequence specific DNA binding site [nucleotide binding]; other site 394004535 putative cAMP binding site [chemical binding]; other site 394004536 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 394004537 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 394004538 nucleotide binding site [chemical binding]; other site 394004539 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 394004540 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 394004541 Active Sites [active] 394004542 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 394004543 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 394004544 CysD dimerization site [polypeptide binding]; other site 394004545 G1 box; other site 394004546 putative GEF interaction site [polypeptide binding]; other site 394004547 GTP/Mg2+ binding site [chemical binding]; other site 394004548 Switch I region; other site 394004549 G2 box; other site 394004550 G3 box; other site 394004551 Switch II region; other site 394004552 G4 box; other site 394004553 G5 box; other site 394004554 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 394004555 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 394004556 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 394004557 ligand-binding site [chemical binding]; other site 394004558 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 394004559 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 394004560 active site 394004561 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 394004562 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 394004563 active site 394004564 dimer interface [polypeptide binding]; other site 394004565 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 394004566 Ligand Binding Site [chemical binding]; other site 394004567 Molecular Tunnel; other site 394004568 PHP domain; Region: PHP; pfam02811 394004569 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 394004570 active site 394004571 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 394004572 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 394004573 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394004574 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394004575 NAD(P) binding site [chemical binding]; other site 394004576 active site 394004577 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 394004578 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394004579 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 394004580 putative ADP-binding pocket [chemical binding]; other site 394004581 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 394004582 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394004583 putative ADP-binding pocket [chemical binding]; other site 394004584 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 394004585 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 394004586 NAD(P) binding site [chemical binding]; other site 394004587 homodimer interface [polypeptide binding]; other site 394004588 substrate binding site [chemical binding]; other site 394004589 active site 394004590 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 394004591 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 394004592 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 394004593 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394004594 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394004595 active site 394004596 phosphorylation site [posttranslational modification] 394004597 intermolecular recognition site; other site 394004598 dimerization interface [polypeptide binding]; other site 394004599 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394004600 DNA binding residues [nucleotide binding] 394004601 dimerization interface [polypeptide binding]; other site 394004602 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 394004603 Histidine kinase; Region: HisKA_3; pfam07730 394004604 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 394004605 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_4; cd08651 394004606 putative active site [active] 394004607 putative substrate binding site [chemical binding]; other site 394004608 putative cosubstrate binding site; other site 394004609 catalytic site [active] 394004610 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 394004611 active site 394004612 hexamer interface [polypeptide binding]; other site 394004613 Chain length determinant protein; Region: Wzz; pfam02706 394004614 AAA domain; Region: AAA_31; pfam13614 394004615 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 394004616 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394004617 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 394004618 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 394004619 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 394004620 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 394004621 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 394004622 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 394004623 SLBB domain; Region: SLBB; pfam10531 394004624 Bacterial sugar transferase; Region: Bac_transf; pfam02397 394004625 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 394004626 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 394004627 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 394004628 inhibitor-cofactor binding pocket; inhibition site 394004629 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394004630 catalytic residue [active] 394004631 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394004632 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 394004633 putative ADP-binding pocket [chemical binding]; other site 394004634 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 394004635 Mechanosensitive ion channel; Region: MS_channel; pfam00924 394004636 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394004637 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 394004638 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 394004639 NodB motif; other site 394004640 putative active site [active] 394004641 putative catalytic site [active] 394004642 putative Zn binding site [ion binding]; other site 394004643 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 394004644 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 394004645 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 394004646 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 394004647 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 394004648 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 394004649 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394004650 cyclase homology domain; Region: CHD; cd07302 394004651 nucleotidyl binding site; other site 394004652 metal binding site [ion binding]; metal-binding site 394004653 dimer interface [polypeptide binding]; other site 394004654 Polysaccharide lyase; Region: Polysacc_lyase; pfam14099 394004655 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 394004656 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394004657 Walker A/P-loop; other site 394004658 ATP binding site [chemical binding]; other site 394004659 Q-loop/lid; other site 394004660 ABC transporter signature motif; other site 394004661 Walker B; other site 394004662 D-loop; other site 394004663 H-loop/switch region; other site 394004664 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 394004665 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394004666 Walker A/P-loop; other site 394004667 ATP binding site [chemical binding]; other site 394004668 Q-loop/lid; other site 394004669 ABC transporter signature motif; other site 394004670 Walker B; other site 394004671 D-loop; other site 394004672 H-loop/switch region; other site 394004673 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394004674 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_4; cd08500 394004675 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 394004676 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 394004677 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004678 putative PBP binding loops; other site 394004679 dimer interface [polypeptide binding]; other site 394004680 ABC-ATPase subunit interface; other site 394004681 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 394004682 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 394004683 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004684 dimer interface [polypeptide binding]; other site 394004685 conserved gate region; other site 394004686 putative PBP binding loops; other site 394004687 ABC-ATPase subunit interface; other site 394004688 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 394004689 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 394004690 colanic acid biosynthesis glycosyltransferase WcaL; Provisional; Region: PRK15427 394004691 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 394004692 putative ADP-binding pocket [chemical binding]; other site 394004693 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 394004694 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 394004695 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 394004696 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 394004697 ligand binding site [chemical binding]; other site 394004698 flexible hinge region; other site 394004699 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 394004700 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 394004701 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 394004702 DNA binding residues [nucleotide binding] 394004703 dimer interface [polypeptide binding]; other site 394004704 copper binding site [ion binding]; other site 394004705 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 394004706 metal-binding site [ion binding] 394004707 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 394004708 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 394004709 metal-binding site [ion binding] 394004710 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 394004711 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394004712 motif II; other site 394004713 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_6; cd07824 394004714 putative hydrophobic ligand binding site [chemical binding]; other site 394004715 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 394004716 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 394004717 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 394004718 Soluble P-type ATPase [General function prediction only]; Region: COG4087 394004719 potassium-transporting ATPase subunit C; Provisional; Region: PRK13999 394004720 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 394004721 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 394004722 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 394004723 Ligand Binding Site [chemical binding]; other site 394004724 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 394004725 GAF domain; Region: GAF_3; pfam13492 394004726 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394004727 dimer interface [polypeptide binding]; other site 394004728 phosphorylation site [posttranslational modification] 394004729 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394004730 ATP binding site [chemical binding]; other site 394004731 Mg2+ binding site [ion binding]; other site 394004732 G-X-G motif; other site 394004733 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394004734 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394004735 active site 394004736 phosphorylation site [posttranslational modification] 394004737 intermolecular recognition site; other site 394004738 dimerization interface [polypeptide binding]; other site 394004739 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394004740 DNA binding site [nucleotide binding] 394004741 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 394004742 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 394004743 tetramerization interface [polypeptide binding]; other site 394004744 active site 394004745 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 394004746 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394004747 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394004748 dimerization interface [polypeptide binding]; other site 394004749 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 394004750 putative catalytic residues [active] 394004751 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 394004752 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394004753 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 394004754 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 394004755 [2Fe-2S] cluster binding site [ion binding]; other site 394004756 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 394004757 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 394004758 dimer interface [polypeptide binding]; other site 394004759 active site 394004760 heme binding site [chemical binding]; other site 394004761 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 394004762 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 394004763 Helix-turn-helix domain; Region: HTH_18; pfam12833 394004764 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394004765 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 394004766 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 394004767 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 394004768 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 394004769 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394004770 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 394004771 TM-ABC transporter signature motif; other site 394004772 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394004773 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 394004774 TM-ABC transporter signature motif; other site 394004775 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 394004776 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 394004777 Walker A/P-loop; other site 394004778 ATP binding site [chemical binding]; other site 394004779 Q-loop/lid; other site 394004780 ABC transporter signature motif; other site 394004781 Walker B; other site 394004782 D-loop; other site 394004783 H-loop/switch region; other site 394004784 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 394004785 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 394004786 Walker A/P-loop; other site 394004787 ATP binding site [chemical binding]; other site 394004788 Q-loop/lid; other site 394004789 ABC transporter signature motif; other site 394004790 Walker B; other site 394004791 D-loop; other site 394004792 H-loop/switch region; other site 394004793 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 394004794 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 394004795 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 394004796 active site 394004797 catalytic site [active] 394004798 tetramer interface [polypeptide binding]; other site 394004799 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 394004800 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 394004801 active site 394004802 homotetramer interface [polypeptide binding]; other site 394004803 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 394004804 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 394004805 catalytic loop [active] 394004806 iron binding site [ion binding]; other site 394004807 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 394004808 FAD binding domain; Region: FAD_binding_4; pfam01565 394004809 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 394004810 Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]; Region: XdhB; COG4631 394004811 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 394004812 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 394004813 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 394004814 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 394004815 XdhC Rossmann domain; Region: XdhC_C; pfam13478 394004816 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394004817 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394004818 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 394004819 putative effector binding pocket; other site 394004820 dimerization interface [polypeptide binding]; other site 394004821 Predicted membrane protein [Function unknown]; Region: COG3748 394004822 Protein of unknown function (DUF989); Region: DUF989; pfam06181 394004823 Cytochrome c; Region: Cytochrom_C; pfam00034 394004824 guanine deaminase; Provisional; Region: PRK09228 394004825 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 394004826 active site 394004827 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 394004828 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 394004829 putative dimer interface [polypeptide binding]; other site 394004830 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 394004831 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 394004832 putative dimer interface [polypeptide binding]; other site 394004833 NGR_b12760; temperature sensor, ROSE, RF00435 394004834 Protein of unknown function (DUF982); Region: DUF982; pfam06169 394004835 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 394004836 Transglycosylase; Region: Transgly; pfam00912 394004837 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 394004838 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 394004839 Subfamily of PAN/APPLE-like domains; present in plasma prekallikrein/coagulation factor XI, microneme antigen proteins, and a few prokaryotic proteins. PAN/APPLE domains fulfill diverse biological functions by mediating protein-protein or...; Region: APPLE_Factor_XI_like; cd01100 394004840 putative binding site; other site 394004841 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 394004842 MG2 domain; Region: A2M_N; pfam01835 394004843 Alpha-2-macroglobulin family; Region: A2M; pfam00207 394004844 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 394004845 surface patch; other site 394004846 thioester region; other site 394004847 specificity defining residues; other site 394004848 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 394004849 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394004850 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004851 dimer interface [polypeptide binding]; other site 394004852 conserved gate region; other site 394004853 putative PBP binding loops; other site 394004854 ABC-ATPase subunit interface; other site 394004855 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004856 dimer interface [polypeptide binding]; other site 394004857 conserved gate region; other site 394004858 putative PBP binding loops; other site 394004859 ABC-ATPase subunit interface; other site 394004860 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 394004861 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 394004862 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394004863 Walker A/P-loop; other site 394004864 ATP binding site [chemical binding]; other site 394004865 Q-loop/lid; other site 394004866 ABC transporter signature motif; other site 394004867 Walker B; other site 394004868 D-loop; other site 394004869 H-loop/switch region; other site 394004870 TOBE domain; Region: TOBE_2; pfam08402 394004871 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394004872 DNA-binding site [nucleotide binding]; DNA binding site 394004873 Transcriptional regulators [Transcription]; Region: GntR; COG1802 394004874 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 394004875 DNA-binding transcriptional repressor DeoR; Provisional; Region: PRK10681 394004876 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 394004877 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 394004878 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 394004879 intersubunit interface [polypeptide binding]; other site 394004880 active site 394004881 catalytic residue [active] 394004882 Aldehyde dehydrogenase family 16A1-like; Region: ALDH_F16; cd07111 394004883 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 394004884 NAD(P) binding site [chemical binding]; other site 394004885 catalytic residues [active] 394004886 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 394004887 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 394004888 NAD(P) binding site [chemical binding]; other site 394004889 catalytic residues [active] 394004890 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 394004891 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 394004892 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 394004893 substrate binding site [chemical binding]; other site 394004894 dimer interface [polypeptide binding]; other site 394004895 ATP binding site [chemical binding]; other site 394004896 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394004897 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004898 dimer interface [polypeptide binding]; other site 394004899 conserved gate region; other site 394004900 putative PBP binding loops; other site 394004901 ABC-ATPase subunit interface; other site 394004902 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394004903 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004904 dimer interface [polypeptide binding]; other site 394004905 conserved gate region; other site 394004906 putative PBP binding loops; other site 394004907 ABC-ATPase subunit interface; other site 394004908 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394004909 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394004910 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 394004911 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394004912 Walker A/P-loop; other site 394004913 ATP binding site [chemical binding]; other site 394004914 Q-loop/lid; other site 394004915 ABC transporter signature motif; other site 394004916 Walker B; other site 394004917 D-loop; other site 394004918 H-loop/switch region; other site 394004919 TOBE domain; Region: TOBE_2; pfam08402 394004920 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 394004921 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 394004922 Amidinotransferase; Region: Amidinotransf; cl12043 394004923 mercuric reductase; Validated; Region: PRK06370 394004924 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 394004925 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394004926 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 394004927 Predicted membrane protein [Function unknown]; Region: COG3918 394004928 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 394004929 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004930 dimer interface [polypeptide binding]; other site 394004931 conserved gate region; other site 394004932 ABC-ATPase subunit interface; other site 394004933 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 394004934 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 394004935 Walker A/P-loop; other site 394004936 ATP binding site [chemical binding]; other site 394004937 Q-loop/lid; other site 394004938 ABC transporter signature motif; other site 394004939 Walker B; other site 394004940 D-loop; other site 394004941 H-loop/switch region; other site 394004942 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004943 dimer interface [polypeptide binding]; other site 394004944 conserved gate region; other site 394004945 putative PBP binding loops; other site 394004946 ABC-ATPase subunit interface; other site 394004947 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394004948 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394004949 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394004950 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 394004951 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 394004952 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394004953 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394004954 DNA binding site [nucleotide binding] 394004955 domain linker motif; other site 394004956 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 394004957 ligand binding site [chemical binding]; other site 394004958 dimerization interface [polypeptide binding]; other site 394004959 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394004960 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394004961 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394004962 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394004963 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004964 dimer interface [polypeptide binding]; other site 394004965 conserved gate region; other site 394004966 putative PBP binding loops; other site 394004967 ABC-ATPase subunit interface; other site 394004968 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394004969 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394004970 dimer interface [polypeptide binding]; other site 394004971 conserved gate region; other site 394004972 putative PBP binding loops; other site 394004973 ABC-ATPase subunit interface; other site 394004974 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 394004975 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 394004976 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 394004977 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394004978 Walker A/P-loop; other site 394004979 ATP binding site [chemical binding]; other site 394004980 Q-loop/lid; other site 394004981 ABC transporter signature motif; other site 394004982 Walker B; other site 394004983 D-loop; other site 394004984 H-loop/switch region; other site 394004985 TOBE domain; Region: TOBE_2; pfam08402 394004986 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 394004987 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394004988 Coenzyme A binding pocket [chemical binding]; other site 394004989 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 394004990 RNA binding site [nucleotide binding]; other site 394004991 short chain dehydrogenase; Provisional; Region: PRK08339 394004992 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 394004993 putative NAD(P) binding site [chemical binding]; other site 394004994 putative active site [active] 394004995 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 394004996 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 394004997 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394004998 catalytic residue [active] 394004999 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 394005000 homotrimer interaction site [polypeptide binding]; other site 394005001 putative active site [active] 394005002 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 394005003 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394005004 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 394005005 substrate binding pocket [chemical binding]; other site 394005006 dimerization interface [polypeptide binding]; other site 394005007 Uncharacterized conserved protein [Function unknown]; Region: COG5476 394005008 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 394005009 MlrC C-terminus; Region: MlrC_C; pfam07171 394005010 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 394005011 homotrimer interaction site [polypeptide binding]; other site 394005012 putative active site [active] 394005013 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 394005014 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 394005015 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 394005016 putative active site [active] 394005017 short chain dehydrogenase; Provisional; Region: PRK07074 394005018 classical (c) SDRs; Region: SDR_c; cd05233 394005019 NAD(P) binding site [chemical binding]; other site 394005020 active site 394005021 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i)...; Region: GH20_chitobiase-like; cd06563 394005022 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 394005023 active site 394005024 Uncharacterized conserved protein [Function unknown]; Region: COG5476 394005025 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 394005026 MlrC C-terminus; Region: MlrC_C; pfam07171 394005027 urocanate hydratase; Provisional; Region: PRK05414 394005028 N-formylglutamate amidohydrolase; Region: FGase; cl01522 394005029 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 394005030 active sites [active] 394005031 tetramer interface [polypeptide binding]; other site 394005032 imidazolonepropionase; Validated; Region: PRK09356 394005033 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 394005034 active site 394005035 Uncharacterized component of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3709 394005036 AAA domain; Region: AAA_33; pfam13671 394005037 active site 394005038 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 394005039 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 394005040 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 394005041 active site 394005042 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 394005043 ABC-type phosphate/phosphonate transport system, permease component [Inorganic ion transport and metabolism]; Region: COG3639 394005044 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394005045 dimer interface [polypeptide binding]; other site 394005046 conserved gate region; other site 394005047 ABC-ATPase subunit interface; other site 394005048 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 394005049 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394005050 dimer interface [polypeptide binding]; other site 394005051 conserved gate region; other site 394005052 ABC-ATPase subunit interface; other site 394005053 phosphonate ABC transporter, periplasmic phosphonate binding protein; Region: PhnD; TIGR03431 394005054 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 394005055 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 394005056 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 394005057 Walker A/P-loop; other site 394005058 ATP binding site [chemical binding]; other site 394005059 Q-loop/lid; other site 394005060 ABC transporter signature motif; other site 394005061 Walker B; other site 394005062 D-loop; other site 394005063 H-loop/switch region; other site 394005064 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 394005065 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 394005066 FAD binding site [chemical binding]; other site 394005067 substrate binding pocket [chemical binding]; other site 394005068 catalytic base [active] 394005069 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 394005070 CoA-transferase family III; Region: CoA_transf_3; pfam02515 394005071 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394005072 extended (e) SDRs; Region: SDR_e; cd08946 394005073 NAD(P) binding site [chemical binding]; other site 394005074 active site 394005075 substrate binding site [chemical binding]; other site 394005076 Uncharacterized protein conserved in bacteria with an aminopeptidase-like domain [General function prediction only]; Region: COG4310 394005077 M28 Zn-Peptidases; Region: M28_like_3; cd05644 394005078 active site 394005079 metal binding site [ion binding]; metal-binding site 394005080 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 394005081 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 394005082 Methyltransferase domain; Region: Methyltransf_23; pfam13489 394005083 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394005084 S-adenosylmethionine binding site [chemical binding]; other site 394005085 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 394005086 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 394005087 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 394005088 active site 394005089 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 394005090 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 394005091 Putative transposase; Region: Y2_Tnp; pfam04986 394005092 integron integrase; Region: integrase_gron; TIGR02249 394005093 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 394005094 Int/Topo IB signature motif; other site 394005095 Acyltransferase family; Region: Acyl_transf_3; pfam01757 394005096 glutamate-1-semialdehyde 2,1-aminomutase; Provisional; Region: PRK06209 394005097 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 394005098 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394005099 catalytic residue [active] 394005100 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394005101 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 394005102 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 394005103 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 394005104 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 394005105 active site 394005106 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 394005107 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 394005108 active site 394005109 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 394005110 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 394005111 Putative collagen-binding domain of a collagenase; Region: Collagen_bind_2; pfam12904 394005112 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 394005113 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 394005114 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 394005115 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 394005116 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 394005117 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 394005118 integron integrase; Region: integrase_gron; TIGR02249 394005119 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 394005120 Int/Topo IB signature motif; other site 394005121 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 394005122 Putative transposase; Region: Y2_Tnp; pfam04986 394005123 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 394005124 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 394005125 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 394005126 heat shock protein 90; Provisional; Region: PRK05218 394005127 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394005128 ATP binding site [chemical binding]; other site 394005129 Mg2+ binding site [ion binding]; other site 394005130 G-X-G motif; other site 394005131 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 394005132 phosphate acetyltransferase; Provisional; Region: PRK11890 394005133 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 394005134 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 394005135 propionate/acetate kinase; Provisional; Region: PRK12379 394005136 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 394005137 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 394005138 NAD binding site [chemical binding]; other site 394005139 homotetramer interface [polypeptide binding]; other site 394005140 homodimer interface [polypeptide binding]; other site 394005141 substrate binding site [chemical binding]; other site 394005142 active site 394005143 succinic semialdehyde dehydrogenase; Region: PLN02278 394005144 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 394005145 tetramerization interface [polypeptide binding]; other site 394005146 NAD(P) binding site [chemical binding]; other site 394005147 catalytic residues [active] 394005148 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 394005149 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394005150 inhibitor-cofactor binding pocket; inhibition site 394005151 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394005152 catalytic residue [active] 394005153 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 394005154 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 394005155 DNA binding residues [nucleotide binding] 394005156 dimer interface [polypeptide binding]; other site 394005157 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 394005158 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394005159 non-specific DNA binding site [nucleotide binding]; other site 394005160 salt bridge; other site 394005161 sequence-specific DNA binding site [nucleotide binding]; other site 394005162 Cupin domain; Region: Cupin_2; pfam07883 394005163 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 394005164 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 394005165 active site 394005166 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 394005167 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 394005168 active site 394005169 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 394005170 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 394005171 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394005172 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 394005173 Walker A/P-loop; other site 394005174 ATP binding site [chemical binding]; other site 394005175 Q-loop/lid; other site 394005176 ABC transporter signature motif; other site 394005177 Walker B; other site 394005178 D-loop; other site 394005179 H-loop/switch region; other site 394005180 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 394005181 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 394005182 intersubunit interface [polypeptide binding]; other site 394005183 active site 394005184 zinc binding site [ion binding]; other site 394005185 Na+ binding site [ion binding]; other site 394005186 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 394005187 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 394005188 peptide binding site [polypeptide binding]; other site 394005189 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 394005190 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394005191 dimer interface [polypeptide binding]; other site 394005192 conserved gate region; other site 394005193 putative PBP binding loops; other site 394005194 ABC-ATPase subunit interface; other site 394005195 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 394005196 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394005197 dimer interface [polypeptide binding]; other site 394005198 conserved gate region; other site 394005199 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 394005200 ABC-ATPase subunit interface; other site 394005201 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 394005202 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394005203 Walker A/P-loop; other site 394005204 ATP binding site [chemical binding]; other site 394005205 Q-loop/lid; other site 394005206 ABC transporter signature motif; other site 394005207 Walker B; other site 394005208 D-loop; other site 394005209 H-loop/switch region; other site 394005210 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394005211 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394005212 Walker A/P-loop; other site 394005213 ATP binding site [chemical binding]; other site 394005214 Q-loop/lid; other site 394005215 ABC transporter signature motif; other site 394005216 Walker B; other site 394005217 D-loop; other site 394005218 H-loop/switch region; other site 394005219 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394005220 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 394005221 Chain length determinant protein; Region: Wzz; pfam02706 394005222 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 394005223 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 394005224 P-loop; other site 394005225 Magnesium ion binding site [ion binding]; other site 394005226 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394005227 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394005228 Bacterial sugar transferase; Region: Bac_transf; pfam02397 394005229 potential frameshift: common BLAST hit: gi|209542832|ref|YP_002275061.1| transposase IS4 family protein 394005230 Transposase domain (DUF772); Region: DUF772; pfam05598 394005231 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 394005232 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 394005233 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 394005234 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 394005235 SLBB domain; Region: SLBB; pfam10531 394005236 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 394005237 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 394005238 active site 394005239 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 394005240 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 394005241 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394005242 putative ADP-binding pocket [chemical binding]; other site 394005243 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 394005244 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394005245 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394005246 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 394005247 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394005248 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394005249 DNA binding residues [nucleotide binding] 394005250 dimerization interface [polypeptide binding]; other site 394005251 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 394005252 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 394005253 active site 394005254 substrate binding site [chemical binding]; other site 394005255 metal binding site [ion binding]; metal-binding site 394005256 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 394005257 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 394005258 Substrate binding site; other site 394005259 Cupin domain; Region: Cupin_2; cl17218 394005260 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 394005261 dimerization interface [polypeptide binding]; other site 394005262 putative active cleft [active] 394005263 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 394005264 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394005265 active site 394005266 phosphorylation site [posttranslational modification] 394005267 intermolecular recognition site; other site 394005268 dimerization interface [polypeptide binding]; other site 394005269 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394005270 Walker A motif; other site 394005271 ATP binding site [chemical binding]; other site 394005272 Walker B motif; other site 394005273 arginine finger; other site 394005274 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 394005275 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394005276 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 394005277 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394005278 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 394005279 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394005280 dimer interface [polypeptide binding]; other site 394005281 phosphorylation site [posttranslational modification] 394005282 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394005283 ATP binding site [chemical binding]; other site 394005284 Mg2+ binding site [ion binding]; other site 394005285 G-X-G motif; other site 394005286 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 394005287 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394005288 Zn binding site [ion binding]; other site 394005289 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 394005290 Zn binding site [ion binding]; other site 394005291 Predicted esterase [General function prediction only]; Region: COG0400 394005292 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 394005293 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 394005294 putative active site [active] 394005295 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 394005296 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 394005297 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 394005298 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 394005299 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 394005300 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 394005301 Walker A/P-loop; other site 394005302 ATP binding site [chemical binding]; other site 394005303 Q-loop/lid; other site 394005304 ABC transporter signature motif; other site 394005305 Walker B; other site 394005306 D-loop; other site 394005307 H-loop/switch region; other site 394005308 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 394005309 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 394005310 Walker A/P-loop; other site 394005311 ATP binding site [chemical binding]; other site 394005312 Q-loop/lid; other site 394005313 ABC transporter signature motif; other site 394005314 Walker B; other site 394005315 D-loop; other site 394005316 H-loop/switch region; other site 394005317 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 394005318 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 394005319 HlyD family secretion protein; Region: HlyD_3; pfam13437 394005320 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 394005321 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394005322 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 394005323 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 394005324 HPP family; Region: HPP; pfam04982 394005325 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 394005326 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 394005327 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394005328 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394005329 dimer interface [polypeptide binding]; other site 394005330 phosphorylation site [posttranslational modification] 394005331 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394005332 ATP binding site [chemical binding]; other site 394005333 Mg2+ binding site [ion binding]; other site 394005334 G-X-G motif; other site 394005335 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394005336 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394005337 active site 394005338 phosphorylation site [posttranslational modification] 394005339 intermolecular recognition site; other site 394005340 dimerization interface [polypeptide binding]; other site 394005341 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394005342 DNA binding site [nucleotide binding] 394005343 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 394005344 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 394005345 Sulfatase; Region: Sulfatase; pfam00884 394005346 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 394005347 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 394005348 active site 394005349 metal binding site [ion binding]; metal-binding site 394005350 putative phosphatase; Provisional; Region: PRK11587 394005351 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394005352 motif II; other site 394005353 Serine hydrolase; Region: Ser_hydrolase; pfam06821 394005354 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 394005355 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 394005356 Part of AAA domain; Region: AAA_19; pfam13245 394005357 Family description; Region: UvrD_C_2; pfam13538 394005358 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 394005359 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394005360 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394005361 metal binding site [ion binding]; metal-binding site 394005362 active site 394005363 I-site; other site 394005364 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 394005365 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 394005366 potassium uptake protein; Region: kup; TIGR00794 394005367 Predicted dehydrogenase [General function prediction only]; Region: COG0579 394005368 hydroxyglutarate oxidase; Provisional; Region: PRK11728 394005369 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 394005370 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394005371 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394005372 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394005373 dimerization interface [polypeptide binding]; other site 394005374 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394005375 dimer interface [polypeptide binding]; other site 394005376 conserved gate region; other site 394005377 putative PBP binding loops; other site 394005378 ABC-ATPase subunit interface; other site 394005379 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394005380 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394005381 dimer interface [polypeptide binding]; other site 394005382 conserved gate region; other site 394005383 putative PBP binding loops; other site 394005384 ABC-ATPase subunit interface; other site 394005385 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 394005386 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 394005387 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 394005388 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394005389 Walker A/P-loop; other site 394005390 ATP binding site [chemical binding]; other site 394005391 Q-loop/lid; other site 394005392 ABC transporter signature motif; other site 394005393 Walker B; other site 394005394 D-loop; other site 394005395 H-loop/switch region; other site 394005396 TOBE domain; Region: TOBE_2; pfam08402 394005397 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 394005398 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 394005399 active site pocket [active] 394005400 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394005401 classical (c) SDRs; Region: SDR_c; cd05233 394005402 NAD(P) binding site [chemical binding]; other site 394005403 active site 394005404 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 394005405 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 394005406 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 394005407 NAD(P) binding site [chemical binding]; other site 394005408 catalytic residues [active] 394005409 choline dehydrogenase; Validated; Region: PRK02106 394005410 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 394005411 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 394005412 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 394005413 active site pocket [active] 394005414 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 394005415 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 394005416 manganese transport regulator MntR; Provisional; Region: PRK11050 394005417 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 394005418 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 394005419 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 394005420 BA14K-like protein; Region: BA14K; pfam07886 394005421 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 394005422 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394005423 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 394005424 substrate binding pocket [chemical binding]; other site 394005425 dimerization interface [polypeptide binding]; other site 394005426 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 394005427 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 394005428 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 394005429 GXWXG protein; Region: GXWXG; pfam14231 394005430 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 394005431 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 394005432 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 394005433 Uncharacterized conserved protein [Function unknown]; Region: COG3025 394005434 putative active site [active] 394005435 putative triphosphate binding site [ion binding]; other site 394005436 putative metal binding residues [ion binding]; other site 394005437 CHAD domain; Region: CHAD; pfam05235 394005438 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 394005439 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 394005440 ligand binding site; other site 394005441 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 394005442 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 394005443 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 394005444 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 394005445 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 394005446 Walker A/P-loop; other site 394005447 ATP binding site [chemical binding]; other site 394005448 Q-loop/lid; other site 394005449 ABC transporter signature motif; other site 394005450 Walker B; other site 394005451 D-loop; other site 394005452 H-loop/switch region; other site 394005453 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 394005454 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 394005455 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 394005456 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 394005457 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394005458 active site 394005459 phosphorylation site [posttranslational modification] 394005460 intermolecular recognition site; other site 394005461 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 394005462 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 394005463 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 394005464 NAD(P) binding site [chemical binding]; other site 394005465 PAS fold; Region: PAS_7; pfam12860 394005466 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 394005467 putative active site [active] 394005468 heme pocket [chemical binding]; other site 394005469 PAS fold; Region: PAS_7; pfam12860 394005470 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394005471 dimer interface [polypeptide binding]; other site 394005472 phosphorylation site [posttranslational modification] 394005473 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394005474 ATP binding site [chemical binding]; other site 394005475 Mg2+ binding site [ion binding]; other site 394005476 G-X-G motif; other site 394005477 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 394005478 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394005479 active site 394005480 phosphorylation site [posttranslational modification] 394005481 intermolecular recognition site; other site 394005482 dimerization interface [polypeptide binding]; other site 394005483 Response regulator receiver domain; Region: Response_reg; pfam00072 394005484 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394005485 active site 394005486 phosphorylation site [posttranslational modification] 394005487 intermolecular recognition site; other site 394005488 dimerization interface [polypeptide binding]; other site 394005489 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 394005490 putative binding surface; other site 394005491 active site 394005492 Coenzyme A transferase; Region: CoA_trans; cl17247 394005493 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 394005494 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 394005495 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 394005496 Fic family protein [Function unknown]; Region: COG3177 394005497 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 394005498 Fic/DOC family; Region: Fic; pfam02661 394005499 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 394005500 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 394005501 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 394005502 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 394005503 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 394005504 substrate binding site [chemical binding]; other site 394005505 catalytic Zn binding site [ion binding]; other site 394005506 NAD binding site [chemical binding]; other site 394005507 structural Zn binding site [ion binding]; other site 394005508 dimer interface [polypeptide binding]; other site 394005509 Predicted membrane protein [Function unknown]; Region: COG2259 394005510 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394005511 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394005512 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 394005513 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 394005514 Walker A/P-loop; other site 394005515 ATP binding site [chemical binding]; other site 394005516 Q-loop/lid; other site 394005517 ABC transporter signature motif; other site 394005518 Walker B; other site 394005519 D-loop; other site 394005520 H-loop/switch region; other site 394005521 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 394005522 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 394005523 Walker A/P-loop; other site 394005524 ATP binding site [chemical binding]; other site 394005525 Q-loop/lid; other site 394005526 ABC transporter signature motif; other site 394005527 Walker B; other site 394005528 D-loop; other site 394005529 H-loop/switch region; other site 394005530 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394005531 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 394005532 TM-ABC transporter signature motif; other site 394005533 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 394005534 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 394005535 TM-ABC transporter signature motif; other site 394005536 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 394005537 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 394005538 putative ligand binding site [chemical binding]; other site 394005539 hypothetical protein; Provisional; Region: PRK09262 394005540 Cupin domain; Region: Cupin_2; pfam07883 394005541 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 394005542 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394005543 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 394005544 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 394005545 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 394005546 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 394005547 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 394005548 NAD(P) binding site [chemical binding]; other site 394005549 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 394005550 Cytochrome P450; Region: p450; cl12078 394005551 Amidohydrolase; Region: Amidohydro_2; pfam04909 394005552 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 394005553 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 394005554 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 394005555 S-formylglutathione hydrolase; Region: PLN02442 394005556 Uncharacterized conserved protein [Function unknown]; Region: COG2353 394005557 Integrase core domain; Region: rve; pfam00665 394005558 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394005559 TPR motif; other site 394005560 TPR repeat; Region: TPR_11; pfam13414 394005561 binding surface 394005562 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394005563 TPR motif; other site 394005564 binding surface 394005565 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 394005566 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 394005567 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394005568 Walker A motif; other site 394005569 ATP binding site [chemical binding]; other site 394005570 Walker B motif; other site 394005571 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 394005572 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394005573 putative DNA binding site [nucleotide binding]; other site 394005574 putative Zn2+ binding site [ion binding]; other site 394005575 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394005576 Integrase core domain; Region: rve; pfam00665 394005577 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394005578 Predicted integral membrane protein [Function unknown]; Region: COG5616 394005579 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 394005580 TPR motif; other site 394005581 TPR repeat; Region: TPR_11; pfam13414 394005582 binding surface 394005583 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 394005584 potential frameshift: common BLAST hit: gi|116249549|ref|YP_765387.1| plasmid stability protein 394005585 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 394005586 oligomeric interface; other site 394005587 putative active site [active] 394005588 homodimer interface [polypeptide binding]; other site 394005589 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 394005590 putative active site [active] 394005591 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 394005592 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 394005593 Uncharacterized conserved protein [Function unknown]; Region: COG5397 394005594 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394005595 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394005596 DNA binding site [nucleotide binding] 394005597 domain linker motif; other site 394005598 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 394005599 dimerization interface [polypeptide binding]; other site 394005600 ligand binding site [chemical binding]; other site 394005601 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394005602 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394005603 Walker A/P-loop; other site 394005604 ATP binding site [chemical binding]; other site 394005605 Q-loop/lid; other site 394005606 ABC transporter signature motif; other site 394005607 Walker B; other site 394005608 D-loop; other site 394005609 H-loop/switch region; other site 394005610 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394005611 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394005612 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394005613 TM-ABC transporter signature motif; other site 394005614 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 394005615 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 394005616 putative ligand binding site [chemical binding]; other site 394005617 short chain dehydrogenase; Provisional; Region: PRK06138 394005618 classical (c) SDRs; Region: SDR_c; cd05233 394005619 NAD(P) binding site [chemical binding]; other site 394005620 active site 394005621 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394005622 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394005623 dimer interface [polypeptide binding]; other site 394005624 conserved gate region; other site 394005625 putative PBP binding loops; other site 394005626 ABC-ATPase subunit interface; other site 394005627 Helix-turn-helix domain; Region: HTH_28; pfam13518 394005628 Winged helix-turn helix; Region: HTH_29; pfam13551 394005629 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394005630 ABC-ATPase subunit interface; other site 394005631 putative PBP binding loops; other site 394005632 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 394005633 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 394005634 DNA-binding interface [nucleotide binding]; DNA binding site 394005635 Integrase core domain; Region: rve; pfam00665 394005636 Helix-turn-helix domain; Region: HTH_28; pfam13518 394005637 Winged helix-turn helix; Region: HTH_29; pfam13551 394005638 Homeodomain-like domain; Region: HTH_32; pfam13565 394005639 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 394005640 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 394005641 catalytic residues [active] 394005642 catalytic nucleophile [active] 394005643 Recombinase; Region: Recombinase; pfam07508 394005644 Helix-turn-helix domain; Region: HTH_28; pfam13518 394005645 Winged helix-turn helix; Region: HTH_29; pfam13551 394005646 Homeodomain-like domain; Region: HTH_32; pfam13565 394005647 Winged helix-turn helix; Region: HTH_29; pfam13551 394005648 Homeodomain-like domain; Region: HTH_32; pfam13565 394005649 Integrase core domain; Region: rve; pfam00665 394005650 Helix-turn-helix domain; Region: HTH_17; cl17695 394005651 PIN domain; Region: PIN_3; pfam13470 394005652 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 394005653 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 394005654 NMT1-like family; Region: NMT1_2; pfam13379 394005655 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 394005656 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394005657 putative PBP binding loops; other site 394005658 dimer interface [polypeptide binding]; other site 394005659 ABC-ATPase subunit interface; other site 394005660 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 394005661 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 394005662 Walker A/P-loop; other site 394005663 ATP binding site [chemical binding]; other site 394005664 Q-loop/lid; other site 394005665 ABC transporter signature motif; other site 394005666 Walker B; other site 394005667 D-loop; other site 394005668 H-loop/switch region; other site 394005669 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 394005670 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394005671 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 394005672 AsnC family; Region: AsnC_trans_reg; pfam01037 394005673 hypothetical protein; Provisional; Region: PRK06148 394005674 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 394005675 active site 394005676 ATP binding site [chemical binding]; other site 394005677 Peptidase family M23; Region: Peptidase_M23; pfam01551 394005678 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394005679 inhibitor-cofactor binding pocket; inhibition site 394005680 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394005681 catalytic residue [active] 394005682 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 394005683 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394005684 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 394005685 Coenzyme A binding pocket [chemical binding]; other site 394005686 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 394005687 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 394005688 Uncharacterized conserved protein [Function unknown]; Region: COG3791 394005689 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 394005690 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 394005691 dimerization interface [polypeptide binding]; other site 394005692 ligand binding site [chemical binding]; other site 394005693 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 394005694 dimerization interface [polypeptide binding]; other site 394005695 PAS fold; Region: PAS_7; pfam12860 394005696 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394005697 cyclase homology domain; Region: CHD; cd07302 394005698 nucleotidyl binding site; other site 394005699 metal binding site [ion binding]; metal-binding site 394005700 dimer interface [polypeptide binding]; other site 394005701 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 394005702 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394005703 Coenzyme A binding pocket [chemical binding]; other site 394005704 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 394005705 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 394005706 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 394005707 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394005708 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 394005709 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 394005710 iron-sulfur cluster [ion binding]; other site 394005711 [2Fe-2S] cluster binding site [ion binding]; other site 394005712 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 394005713 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 394005714 DXD motif; other site 394005715 Cellulose synthase-like protein; Region: PLN02893 394005716 PilZ domain; Region: PilZ; pfam07238 394005717 Bacterial cellulose synthase subunit; Region: BcsB; pfam03170 394005718 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 394005719 Small integral membrane protein [Function unknown]; Region: COG5487; cl17674 394005720 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 394005721 Domain of unknown function DUF20; Region: UPF0118; pfam01594 394005722 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394005723 cyclase homology domain; Region: CHD; cd07302 394005724 nucleotidyl binding site; other site 394005725 metal binding site [ion binding]; metal-binding site 394005726 dimer interface [polypeptide binding]; other site 394005727 Predicted integral membrane protein [Function unknown]; Region: COG5616 394005728 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 394005729 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394005730 TPR motif; other site 394005731 TPR repeat; Region: TPR_11; pfam13414 394005732 binding surface 394005733 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 394005734 Domain of unknown function (DUF1704); Region: DUF1704; cl06858 394005735 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 394005736 glutathione synthetase; Provisional; Region: PRK12458 394005737 ATP-grasp domain; Region: ATP-grasp_4; cl17255 394005738 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 394005739 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 394005740 putative ligand binding site [chemical binding]; other site 394005741 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394005742 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394005743 Walker A/P-loop; other site 394005744 ATP binding site [chemical binding]; other site 394005745 Q-loop/lid; other site 394005746 ABC transporter signature motif; other site 394005747 Walker B; other site 394005748 D-loop; other site 394005749 H-loop/switch region; other site 394005750 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394005751 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394005752 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394005753 TM-ABC transporter signature motif; other site 394005754 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394005755 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394005756 TM-ABC transporter signature motif; other site 394005757 Transcriptional regulators [Transcription]; Region: FadR; COG2186 394005758 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394005759 DNA-binding site [nucleotide binding]; DNA binding site 394005760 FCD domain; Region: FCD; pfam07729 394005761 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 394005762 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 394005763 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 394005764 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 394005765 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394005766 Walker A/P-loop; other site 394005767 ATP binding site [chemical binding]; other site 394005768 Q-loop/lid; other site 394005769 ABC transporter signature motif; other site 394005770 Walker B; other site 394005771 D-loop; other site 394005772 H-loop/switch region; other site 394005773 TOBE domain; Region: TOBE_2; pfam08402 394005774 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394005775 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394005776 dimer interface [polypeptide binding]; other site 394005777 conserved gate region; other site 394005778 putative PBP binding loops; other site 394005779 ABC-ATPase subunit interface; other site 394005780 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394005781 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394005782 dimer interface [polypeptide binding]; other site 394005783 conserved gate region; other site 394005784 putative PBP binding loops; other site 394005785 ABC-ATPase subunit interface; other site 394005786 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394005787 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394005788 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 394005789 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 394005790 DNA interaction; other site 394005791 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394005792 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394005793 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394005794 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394005795 DNA binding site [nucleotide binding] 394005796 domain linker motif; other site 394005797 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 394005798 ligand binding site [chemical binding]; other site 394005799 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 394005800 Peptidase family M50; Region: Peptidase_M50; pfam02163 394005801 active site 394005802 putative substrate binding region [chemical binding]; other site 394005803 FOG: CBS domain [General function prediction only]; Region: COG0517 394005804 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_26; cd04639 394005805 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 394005806 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 394005807 protein binding site [polypeptide binding]; other site 394005808 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 394005809 Active site serine [active] 394005810 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394005811 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394005812 TM-ABC transporter signature motif; other site 394005813 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 394005814 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394005815 Walker A/P-loop; other site 394005816 ATP binding site [chemical binding]; other site 394005817 Q-loop/lid; other site 394005818 ABC transporter signature motif; other site 394005819 Walker B; other site 394005820 D-loop; other site 394005821 H-loop/switch region; other site 394005822 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394005823 extended (e) SDRs; Region: SDR_e; cd08946 394005824 NAD(P) binding site [chemical binding]; other site 394005825 active site 394005826 substrate binding site [chemical binding]; other site 394005827 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 394005828 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 394005829 ligand binding site [chemical binding]; other site 394005830 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 394005831 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 394005832 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 394005833 active site 394005834 catalytic residues [active] 394005835 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394005836 PAS domain; Region: PAS_9; pfam13426 394005837 putative active site [active] 394005838 heme pocket [chemical binding]; other site 394005839 PAS domain S-box; Region: sensory_box; TIGR00229 394005840 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394005841 putative active site [active] 394005842 heme pocket [chemical binding]; other site 394005843 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 394005844 GAF domain; Region: GAF; pfam01590 394005845 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 394005846 PAS domain S-box; Region: sensory_box; TIGR00229 394005847 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 394005848 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394005849 PAS fold; Region: PAS_3; pfam08447 394005850 putative active site [active] 394005851 heme pocket [chemical binding]; other site 394005852 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 394005853 HWE histidine kinase; Region: HWE_HK; pfam07536 394005854 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 394005855 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394005856 active site 394005857 phosphorylation site [posttranslational modification] 394005858 intermolecular recognition site; other site 394005859 dimerization interface [polypeptide binding]; other site 394005860 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 394005861 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394005862 Walker A/P-loop; other site 394005863 ATP binding site [chemical binding]; other site 394005864 Q-loop/lid; other site 394005865 ABC transporter signature motif; other site 394005866 Walker B; other site 394005867 D-loop; other site 394005868 H-loop/switch region; other site 394005869 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 394005870 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394005871 Walker A/P-loop; other site 394005872 ATP binding site [chemical binding]; other site 394005873 Q-loop/lid; other site 394005874 ABC transporter signature motif; other site 394005875 Walker B; other site 394005876 D-loop; other site 394005877 H-loop/switch region; other site 394005878 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 394005879 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394005880 ABC-ATPase subunit interface; other site 394005881 putative PBP binding loops; other site 394005882 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 394005883 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394005884 dimer interface [polypeptide binding]; other site 394005885 conserved gate region; other site 394005886 putative PBP binding loops; other site 394005887 ABC-ATPase subunit interface; other site 394005888 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 394005889 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 394005890 Transcriptional regulators [Transcription]; Region: FadR; COG2186 394005891 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394005892 DNA-binding site [nucleotide binding]; DNA binding site 394005893 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 394005894 D-mannonate dehydratase [Carbohydrate transport and metabolism]; Region: UxuA; COG1312 394005895 mannonate dehydratase; Region: uxuA; TIGR00695 394005896 Transcriptional regulators [Transcription]; Region: GntR; COG1802 394005897 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394005898 DNA-binding site [nucleotide binding]; DNA binding site 394005899 FCD domain; Region: FCD; pfam07729 394005900 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394005901 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394005902 DNA binding site [nucleotide binding] 394005903 AAA ATPase domain; Region: AAA_16; pfam13191 394005904 Predicted ATPase [General function prediction only]; Region: COG3903 394005905 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 394005906 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 394005907 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 394005908 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 394005909 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 394005910 classical (c) SDRs; Region: SDR_c; cd05233 394005911 NAD(P) binding site [chemical binding]; other site 394005912 active site 394005913 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 394005914 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394005915 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 394005916 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394005917 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394005918 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 394005919 putative effector binding pocket; other site 394005920 dimerization interface [polypeptide binding]; other site 394005921 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 394005922 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 394005923 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 394005924 Transmembrane secretion effector; Region: MFS_3; pfam05977 394005925 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394005926 putative substrate translocation pore; other site 394005927 Predicted membrane protein [Function unknown]; Region: COG2259 394005928 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 394005929 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 394005930 active site 394005931 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 394005932 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 394005933 Isochorismatase family; Region: Isochorismatase; pfam00857 394005934 catalytic triad [active] 394005935 dimer interface [polypeptide binding]; other site 394005936 conserved cis-peptide bond; other site 394005937 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394005938 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394005939 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394005940 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394005941 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394005942 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394005943 Helix-turn-helix domain; Region: HTH_18; pfam12833 394005944 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394005945 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394005946 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394005947 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 394005948 putative effector binding pocket; other site 394005949 dimerization interface [polypeptide binding]; other site 394005950 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 394005951 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394005952 Zn binding site [ion binding]; other site 394005953 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 394005954 Zn binding site [ion binding]; other site 394005955 Predicted esterase [General function prediction only]; Region: COG0400 394005956 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 394005957 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 394005958 choline dehydrogenase; Validated; Region: PRK02106 394005959 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 394005960 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 394005961 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 394005962 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 394005963 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394005964 Walker A/P-loop; other site 394005965 ATP binding site [chemical binding]; other site 394005966 Q-loop/lid; other site 394005967 ABC transporter signature motif; other site 394005968 Walker B; other site 394005969 D-loop; other site 394005970 H-loop/switch region; other site 394005971 TOBE domain; Region: TOBE; pfam03459 394005972 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394005973 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394005974 dimer interface [polypeptide binding]; other site 394005975 conserved gate region; other site 394005976 putative PBP binding loops; other site 394005977 ABC-ATPase subunit interface; other site 394005978 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394005979 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394005980 dimer interface [polypeptide binding]; other site 394005981 putative PBP binding loops; other site 394005982 ABC-ATPase subunit interface; other site 394005983 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394005984 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394005985 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 394005986 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 394005987 NAD binding site [chemical binding]; other site 394005988 dimerization interface [polypeptide binding]; other site 394005989 product binding site; other site 394005990 substrate binding site [chemical binding]; other site 394005991 zinc binding site [ion binding]; other site 394005992 catalytic residues [active] 394005993 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 394005994 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 394005995 PYR/PP interface [polypeptide binding]; other site 394005996 dimer interface [polypeptide binding]; other site 394005997 TPP binding site [chemical binding]; other site 394005998 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 394005999 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 394006000 TPP-binding site [chemical binding]; other site 394006001 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394006002 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394006003 non-specific DNA binding site [nucleotide binding]; other site 394006004 salt bridge; other site 394006005 sequence-specific DNA binding site [nucleotide binding]; other site 394006006 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394006007 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394006008 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394006009 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 394006010 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 394006011 Metal-binding active site; metal-binding site 394006012 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 394006013 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 394006014 active site 394006015 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394006016 Major Facilitator Superfamily; Region: MFS_1; pfam07690 394006017 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 394006018 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 394006019 two-component sensor protein; Provisional; Region: cpxA; PRK09470 394006020 HAMP domain; Region: HAMP; pfam00672 394006021 dimerization interface [polypeptide binding]; other site 394006022 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394006023 dimer interface [polypeptide binding]; other site 394006024 phosphorylation site [posttranslational modification] 394006025 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394006026 ATP binding site [chemical binding]; other site 394006027 Mg2+ binding site [ion binding]; other site 394006028 G-X-G motif; other site 394006029 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 394006030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394006031 active site 394006032 phosphorylation site [posttranslational modification] 394006033 intermolecular recognition site; other site 394006034 dimerization interface [polypeptide binding]; other site 394006035 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394006036 DNA binding site [nucleotide binding] 394006037 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 394006038 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 394006039 HlyD family secretion protein; Region: HlyD_3; pfam13437 394006040 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 394006041 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 394006042 nucleophile elbow; other site 394006043 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 394006044 active site 394006045 DNA binding site [nucleotide binding] 394006046 Int/Topo IB signature motif; other site 394006047 Uncharacterized conserved protein [Function unknown]; Region: COG2353 394006048 NMT1/THI5 like; Region: NMT1; pfam09084 394006049 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 394006050 Amidohydrolase; Region: Amidohydro_2; pfam04909 394006051 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 394006052 Cytochrome P450; Region: p450; cl12078 394006053 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 394006054 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 394006055 NAD(P) binding site [chemical binding]; other site 394006056 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 394006057 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 394006058 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 394006059 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 394006060 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 394006061 ligand binding site [chemical binding]; other site 394006062 homodimer interface [polypeptide binding]; other site 394006063 NAD(P) binding site [chemical binding]; other site 394006064 trimer interface B [polypeptide binding]; other site 394006065 trimer interface A [polypeptide binding]; other site 394006066 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 394006067 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 394006068 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394006069 Cupin domain; Region: Cupin_2; cl17218 394006070 hypothetical protein; Provisional; Region: PRK09262 394006071 hypothetical protein; Validated; Region: PRK06201 394006072 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 394006073 Transposase domain (DUF772); Region: DUF772; pfam05598 394006074 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 394006075 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 394006076 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 394006077 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 394006078 putative ligand binding site [chemical binding]; other site 394006079 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 394006080 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 394006081 TM-ABC transporter signature motif; other site 394006082 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394006083 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 394006084 TM-ABC transporter signature motif; other site 394006085 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 394006086 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 394006087 Walker A/P-loop; other site 394006088 ATP binding site [chemical binding]; other site 394006089 Q-loop/lid; other site 394006090 ABC transporter signature motif; other site 394006091 Walker B; other site 394006092 D-loop; other site 394006093 H-loop/switch region; other site 394006094 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 394006095 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 394006096 Walker A/P-loop; other site 394006097 ATP binding site [chemical binding]; other site 394006098 Q-loop/lid; other site 394006099 ABC transporter signature motif; other site 394006100 Walker B; other site 394006101 D-loop; other site 394006102 H-loop/switch region; other site 394006103 Predicted membrane protein [Function unknown]; Region: COG2259 394006104 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394006105 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394006106 Predicted membrane protein [Function unknown]; Region: COG2259 394006107 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 394006108 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 394006109 substrate binding site [chemical binding]; other site 394006110 catalytic Zn binding site [ion binding]; other site 394006111 NAD binding site [chemical binding]; other site 394006112 structural Zn binding site [ion binding]; other site 394006113 dimer interface [polypeptide binding]; other site 394006114 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 394006115 Protein of unknown function, DUF393; Region: DUF393; pfam04134 394006116 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394006117 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394006118 non-specific DNA binding site [nucleotide binding]; other site 394006119 salt bridge; other site 394006120 sequence-specific DNA binding site [nucleotide binding]; other site 394006121 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 394006122 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394006123 inhibitor-cofactor binding pocket; inhibition site 394006124 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394006125 catalytic residue [active] 394006126 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394006127 hydroxyglutarate oxidase; Provisional; Region: PRK11728 394006128 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 394006129 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 394006130 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 394006131 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394006132 hydroxyglutarate oxidase; Provisional; Region: PRK11728 394006133 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 394006134 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 394006135 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 394006136 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 394006137 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 394006138 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 394006139 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 394006140 Ligand binding site [chemical binding]; other site 394006141 Electron transfer flavoprotein domain; Region: ETF; pfam01012 394006142 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394006143 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394006144 ABC-ATPase subunit interface; other site 394006145 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 394006146 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394006147 dimer interface [polypeptide binding]; other site 394006148 conserved gate region; other site 394006149 putative PBP binding loops; other site 394006150 ABC-ATPase subunit interface; other site 394006151 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 394006152 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394006153 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 394006154 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 394006155 Walker A/P-loop; other site 394006156 ATP binding site [chemical binding]; other site 394006157 Q-loop/lid; other site 394006158 ABC transporter signature motif; other site 394006159 Walker B; other site 394006160 D-loop; other site 394006161 H-loop/switch region; other site 394006162 TOBE domain; Region: TOBE_2; pfam08402 394006163 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 394006164 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394006165 non-specific DNA binding site [nucleotide binding]; other site 394006166 salt bridge; other site 394006167 sequence-specific DNA binding site [nucleotide binding]; other site 394006168 Cupin domain; Region: Cupin_2; pfam07883 394006169 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 394006170 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 394006171 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 394006172 putative active site [active] 394006173 putative substrate binding site [chemical binding]; other site 394006174 putative cosubstrate binding site; other site 394006175 catalytic site [active] 394006176 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 394006177 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 394006178 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 394006179 homodimer interface [polypeptide binding]; other site 394006180 NADP binding site [chemical binding]; other site 394006181 substrate binding site [chemical binding]; other site 394006182 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 394006183 hydroxyglutarate oxidase; Provisional; Region: PRK11728 394006184 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 394006185 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 394006186 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 394006187 conserved cys residue [active] 394006188 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394006189 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 394006190 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 394006191 MOFRL family; Region: MOFRL; pfam05161 394006192 Domain of unknown function (DUF336); Region: DUF336; pfam03928 394006193 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394006194 cyclase homology domain; Region: CHD; cd07302 394006195 nucleotidyl binding site; other site 394006196 metal binding site [ion binding]; metal-binding site 394006197 dimer interface [polypeptide binding]; other site 394006198 AAA ATPase domain; Region: AAA_16; pfam13191 394006199 FOG: WD40 repeat [General function prediction only]; Region: COG2319 394006200 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 394006201 structural tetrad; other site 394006202 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 394006203 structural tetrad; other site 394006204 Lipoprotein LpqB beta-propeller domain; Region: Gmad1; pfam10647 394006205 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 394006206 glycosyltransferase, MGT family; Region: MGT; TIGR01426 394006207 active site 394006208 TDP-binding site; other site 394006209 acceptor substrate-binding pocket; other site 394006210 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 394006211 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 394006212 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394006213 Walker A motif; other site 394006214 ATP binding site [chemical binding]; other site 394006215 Walker B motif; other site 394006216 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394006217 Helix-turn-helix domain; Region: HTH_28; pfam13518 394006218 Winged helix-turn helix; Region: HTH_29; pfam13551 394006219 Homeodomain-like domain; Region: HTH_32; pfam13565 394006220 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 394006221 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 394006222 catalytic residues [active] 394006223 catalytic nucleophile [active] 394006224 Recombinase; Region: Recombinase; pfam07508 394006225 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 394006226 DNA binding residues [nucleotide binding] 394006227 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394006228 Integrase core domain; Region: rve; pfam00665 394006229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 394006230 SPW repeat; Region: SPW; pfam03779 394006231 Predicted integral membrane sensor domain [Signal transduction mechanisms]; Region: COG3447 394006232 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394006233 PAS fold; Region: PAS_3; pfam08447 394006234 putative active site [active] 394006235 heme pocket [chemical binding]; other site 394006236 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394006237 PAS domain; Region: PAS_9; pfam13426 394006238 putative active site [active] 394006239 heme pocket [chemical binding]; other site 394006240 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394006241 PAS fold; Region: PAS_3; pfam08447 394006242 putative active site [active] 394006243 heme pocket [chemical binding]; other site 394006244 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 394006245 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394006246 putative active site [active] 394006247 heme pocket [chemical binding]; other site 394006248 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394006249 putative active site [active] 394006250 heme pocket [chemical binding]; other site 394006251 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394006252 PAS fold; Region: PAS_3; pfam08447 394006253 putative active site [active] 394006254 heme pocket [chemical binding]; other site 394006255 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394006256 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394006257 dimer interface [polypeptide binding]; other site 394006258 phosphorylation site [posttranslational modification] 394006259 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394006260 ATP binding site [chemical binding]; other site 394006261 Mg2+ binding site [ion binding]; other site 394006262 G-X-G motif; other site 394006263 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 394006264 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394006265 active site 394006266 phosphorylation site [posttranslational modification] 394006267 intermolecular recognition site; other site 394006268 dimerization interface [polypeptide binding]; other site 394006269 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394006270 DNA binding residues [nucleotide binding] 394006271 dimerization interface [polypeptide binding]; other site 394006272 Response regulator receiver domain; Region: Response_reg; pfam00072 394006273 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394006274 active site 394006275 phosphorylation site [posttranslational modification] 394006276 intermolecular recognition site; other site 394006277 dimerization interface [polypeptide binding]; other site 394006278 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 394006279 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394006280 active site 394006281 phosphorylation site [posttranslational modification] 394006282 intermolecular recognition site; other site 394006283 dimerization interface [polypeptide binding]; other site 394006284 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394006285 dimerization interface [polypeptide binding]; other site 394006286 DNA binding residues [nucleotide binding] 394006287 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 394006288 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 394006289 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394006290 NAD(P) binding site [chemical binding]; other site 394006291 active site 394006292 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 394006293 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 394006294 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394006295 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 394006296 putative DNA binding site [nucleotide binding]; other site 394006297 putative Zn2+ binding site [ion binding]; other site 394006298 AsnC family; Region: AsnC_trans_reg; pfam01037 394006299 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 394006300 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 394006301 nudix motif; other site 394006302 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 394006303 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394006304 Walker A/P-loop; other site 394006305 ATP binding site [chemical binding]; other site 394006306 Q-loop/lid; other site 394006307 ABC transporter signature motif; other site 394006308 Walker B; other site 394006309 D-loop; other site 394006310 H-loop/switch region; other site 394006311 TOBE domain; Region: TOBE_2; pfam08402 394006312 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394006313 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394006314 putative PBP binding loops; other site 394006315 ABC-ATPase subunit interface; other site 394006316 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394006317 dimer interface [polypeptide binding]; other site 394006318 conserved gate region; other site 394006319 putative PBP binding loops; other site 394006320 ABC-ATPase subunit interface; other site 394006321 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 394006322 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 394006323 NIPSNAP; Region: NIPSNAP; pfam07978 394006324 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 394006325 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 394006326 NAD(P) binding site [chemical binding]; other site 394006327 catalytic residues [active] 394006328 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 394006329 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 394006330 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 394006331 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 394006332 nudix motif; other site 394006333 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 394006334 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 394006335 nucleophilic elbow; other site 394006336 catalytic triad; other site 394006337 Amino acid synthesis; Region: AA_synth; pfam06684 394006338 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 394006339 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 394006340 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 394006341 putative active site [active] 394006342 putative substrate binding site [chemical binding]; other site 394006343 putative cosubstrate binding site; other site 394006344 catalytic site [active] 394006345 Ketopantoate hydroxymethyltransferase [Coenzyme metabolism]; Region: PanB; COG0413 394006346 oligomerization interface [polypeptide binding]; other site 394006347 active site 394006348 metal binding site [ion binding]; metal-binding site 394006349 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394006350 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 394006351 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394006352 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 394006353 [2Fe-2S] cluster binding site [ion binding]; other site 394006354 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 394006355 This CD includes the putative hydrocarbon oxygenase, MocD, a bacterial rhizopine (3-O-methyl-scyllo-inosamine, 3-O-MSI) oxygenase, and other related proteins. It has been proposed that MocD, MocE (Rieske-like ferredoxin), and MocF (ferredoxin reductase)...; Region: Rhizopine-oxygenase-like; cd03511 394006356 putative di-iron ligands [ion binding]; other site 394006357 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 394006358 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394006359 DNA binding site [nucleotide binding] 394006360 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 394006361 putative ligand binding site [chemical binding]; other site 394006362 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 394006363 nucleotide binding site [chemical binding]; other site 394006364 cytosine deaminase; Validated; Region: PRK07572 394006365 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 394006366 active site 394006367 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 394006368 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 394006369 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 394006370 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 394006371 putative active site [active] 394006372 metal binding site [ion binding]; metal-binding site 394006373 Predicted neuraminidase (sialidase) [Carbohydrate transport and metabolism]; Region: COG4692 394006374 BNR repeat-like domain; Region: BNR_2; pfam13088 394006375 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 394006376 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 394006377 inhibitor site; inhibition site 394006378 active site 394006379 dimer interface [polypeptide binding]; other site 394006380 catalytic residue [active] 394006381 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 394006382 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 394006383 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 394006384 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394006385 dimer interface [polypeptide binding]; other site 394006386 conserved gate region; other site 394006387 putative PBP binding loops; other site 394006388 ABC-ATPase subunit interface; other site 394006389 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 394006390 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 394006391 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394006392 dimer interface [polypeptide binding]; other site 394006393 conserved gate region; other site 394006394 putative PBP binding loops; other site 394006395 ABC-ATPase subunit interface; other site 394006396 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 394006397 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394006398 Walker A/P-loop; other site 394006399 ATP binding site [chemical binding]; other site 394006400 Q-loop/lid; other site 394006401 ABC transporter signature motif; other site 394006402 Walker B; other site 394006403 D-loop; other site 394006404 H-loop/switch region; other site 394006405 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394006406 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 394006407 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394006408 Walker A/P-loop; other site 394006409 ATP binding site [chemical binding]; other site 394006410 Q-loop/lid; other site 394006411 ABC transporter signature motif; other site 394006412 Walker B; other site 394006413 D-loop; other site 394006414 H-loop/switch region; other site 394006415 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 394006416 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 394006417 Transcriptional regulators [Transcription]; Region: FadR; COG2186 394006418 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394006419 DNA-binding site [nucleotide binding]; DNA binding site 394006420 FCD domain; Region: FCD; pfam07729 394006421 Transposase domain (DUF772); Region: DUF772; pfam05598 394006422 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 394006423 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 394006424 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 394006425 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394006426 putative substrate translocation pore; other site 394006427 Protein of unknown function (DUF982); Region: DUF982; pfam06169 394006428 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 394006429 Domain of unknown function DUF20; Region: UPF0118; pfam01594 394006430 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 394006431 putative catalytic site [active] 394006432 putative metal binding site [ion binding]; other site 394006433 putative phosphate binding site [ion binding]; other site 394006434 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 394006435 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 394006436 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 394006437 Predicted integral membrane protein [Function unknown]; Region: COG0392 394006438 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 394006439 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 394006440 putative active site [active] 394006441 catalytic site [active] 394006442 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 394006443 putative active site [active] 394006444 catalytic site [active] 394006445 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 394006446 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 394006447 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 394006448 active site 394006449 catalytic site [active] 394006450 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 394006451 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 394006452 substrate binding site [chemical binding]; other site 394006453 dimer interface [polypeptide binding]; other site 394006454 triosephosphate isomerase; Provisional; Region: PRK14565 394006455 catalytic triad [active] 394006456 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 394006457 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 394006458 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 394006459 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 394006460 Xylose isomerase [Carbohydrate transport and metabolism]; Region: XylA; cl09945 394006461 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 394006462 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394006463 motif II; other site 394006464 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394006465 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 394006466 D-xylulose kinase; Region: XylB; TIGR01312 394006467 nucleotide binding site [chemical binding]; other site 394006468 Uncharacterized conserved protein [Function unknown]; Region: COG3347 394006469 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 394006470 intersubunit interface [polypeptide binding]; other site 394006471 active site 394006472 Zn2+ binding site [ion binding]; other site 394006473 glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK13369 394006474 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 394006475 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_10; cd12171 394006476 putative ligand binding site [chemical binding]; other site 394006477 putative NAD binding site [chemical binding]; other site 394006478 catalytic site [active] 394006479 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 394006480 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 394006481 putative N- and C-terminal domain interface [polypeptide binding]; other site 394006482 putative active site [active] 394006483 MgATP binding site [chemical binding]; other site 394006484 catalytic site [active] 394006485 metal binding site [ion binding]; metal-binding site 394006486 putative xylulose binding site [chemical binding]; other site 394006487 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 394006488 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 394006489 Walker A/P-loop; other site 394006490 ATP binding site [chemical binding]; other site 394006491 Q-loop/lid; other site 394006492 ABC transporter signature motif; other site 394006493 Walker B; other site 394006494 D-loop; other site 394006495 H-loop/switch region; other site 394006496 TOBE domain; Region: TOBE_2; pfam08402 394006497 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 394006498 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394006499 Walker A/P-loop; other site 394006500 ATP binding site [chemical binding]; other site 394006501 Q-loop/lid; other site 394006502 ABC transporter signature motif; other site 394006503 Walker B; other site 394006504 D-loop; other site 394006505 H-loop/switch region; other site 394006506 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394006507 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 394006508 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 394006509 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394006510 dimer interface [polypeptide binding]; other site 394006511 conserved gate region; other site 394006512 putative PBP binding loops; other site 394006513 ABC-ATPase subunit interface; other site 394006514 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394006515 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394006516 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 394006517 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 394006518 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 394006519 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 394006520 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 394006521 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 394006522 DNA-binding site [nucleotide binding]; DNA binding site 394006523 RNA-binding motif; other site 394006524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 394006525 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 394006526 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 394006527 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394006528 substrate binding pocket [chemical binding]; other site 394006529 membrane-bound complex binding site; other site 394006530 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 394006531 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 394006532 Walker A/P-loop; other site 394006533 ATP binding site [chemical binding]; other site 394006534 Q-loop/lid; other site 394006535 ABC transporter signature motif; other site 394006536 Walker B; other site 394006537 D-loop; other site 394006538 H-loop/switch region; other site 394006539 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 394006540 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394006541 dimer interface [polypeptide binding]; other site 394006542 conserved gate region; other site 394006543 putative PBP binding loops; other site 394006544 ABC-ATPase subunit interface; other site 394006545 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 394006546 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 394006547 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394006548 NAD(P) binding site [chemical binding]; other site 394006549 active site 394006550 5-keto-4-deoxyuronate isomerase; Provisional; Region: PRK00924 394006551 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394006552 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394006553 Predicted unsaturated glucuronyl hydrolase involved in regulation of bacterial surface properties, and related proteins [General function prediction only]; Region: COG4225 394006554 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 394006555 Right handed beta helix region; Region: Beta_helix; pfam13229 394006556 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 394006557 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394006558 Walker A/P-loop; other site 394006559 ATP binding site [chemical binding]; other site 394006560 Q-loop/lid; other site 394006561 ABC transporter signature motif; other site 394006562 Walker B; other site 394006563 D-loop; other site 394006564 H-loop/switch region; other site 394006565 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 394006566 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394006567 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394006568 dimer interface [polypeptide binding]; other site 394006569 conserved gate region; other site 394006570 putative PBP binding loops; other site 394006571 ABC-ATPase subunit interface; other site 394006572 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394006573 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394006574 DNA binding site [nucleotide binding] 394006575 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 394006576 ligand binding site [chemical binding]; other site 394006577 dimerization interface [polypeptide binding]; other site 394006578 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 394006579 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 394006580 DXD motif; other site 394006581 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 394006582 HlyD family secretion protein; Region: HlyD_3; pfam13437 394006583 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394006584 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394006585 metal binding site [ion binding]; metal-binding site 394006586 active site 394006587 I-site; other site 394006588 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394006589 Uncharacterized conserved protein [Function unknown]; Region: COG5439 394006590 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 394006591 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394006592 S-adenosylmethionine binding site [chemical binding]; other site 394006593 Cache domain; Region: Cache_1; pfam02743 394006594 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 394006595 dimerization interface [polypeptide binding]; other site 394006596 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 394006597 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 394006598 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5381 394006599 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 394006600 anti sigma factor interaction site; other site 394006601 regulatory phosphorylation site [posttranslational modification]; other site 394006602 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 394006603 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394006604 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394006605 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 394006606 NAD binding site [chemical binding]; other site 394006607 putative substrate binding site 2 [chemical binding]; other site 394006608 putative substrate binding site 1 [chemical binding]; other site 394006609 active site 394006610 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 394006611 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 394006612 NAD binding site [chemical binding]; other site 394006613 homodimer interface [polypeptide binding]; other site 394006614 active site 394006615 substrate binding site [chemical binding]; other site 394006616 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 394006617 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 394006618 active site 394006619 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 394006620 Protein of unknown function (DUF995); Region: DUF995; pfam06191 394006621 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 394006622 putative active site [active] 394006623 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394006624 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394006625 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394006626 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 394006627 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 394006628 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 394006629 metal binding site [ion binding]; metal-binding site 394006630 Protein of unknown function (DUF993); Region: DUF993; pfam06187 394006631 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394006632 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394006633 HTH-type transcriptional regulator RutR; Provisional; Region: PRK15008 394006634 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394006635 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394006636 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394006637 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394006638 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394006639 dimer interface [polypeptide binding]; other site 394006640 conserved gate region; other site 394006641 putative PBP binding loops; other site 394006642 ABC-ATPase subunit interface; other site 394006643 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394006644 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394006645 dimer interface [polypeptide binding]; other site 394006646 conserved gate region; other site 394006647 putative PBP binding loops; other site 394006648 ABC-ATPase subunit interface; other site 394006649 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394006650 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394006651 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394006652 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394006653 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394006654 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 394006655 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394006656 Walker A/P-loop; other site 394006657 ATP binding site [chemical binding]; other site 394006658 Q-loop/lid; other site 394006659 ABC transporter signature motif; other site 394006660 Walker B; other site 394006661 D-loop; other site 394006662 H-loop/switch region; other site 394006663 TOBE domain; Region: TOBE_2; pfam08402 394006664 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394006665 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394006666 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 394006667 putative effector binding pocket; other site 394006668 dimerization interface [polypeptide binding]; other site 394006669 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 394006670 Uncharacterized conserved protein [Function unknown]; Region: COG2128 394006671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394006672 NADH(P)-binding; Region: NAD_binding_10; pfam13460 394006673 NAD(P) binding site [chemical binding]; other site 394006674 active site 394006675 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 394006676 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 394006677 Mechanosensitive ion channel; Region: MS_channel; pfam00924 394006678 Predicted transcriptional regulator [Transcription]; Region: COG1959 394006679 Transcriptional regulator; Region: Rrf2; pfam02082 394006680 Transcriptional regulator; Region: Rrf2; cl17282 394006681 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 394006682 dimerization interface [polypeptide binding]; other site 394006683 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394006684 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394006685 dimer interface [polypeptide binding]; other site 394006686 putative CheW interface [polypeptide binding]; other site 394006687 Uncharacterized conserved protein [Function unknown]; Region: COG2128 394006688 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 394006689 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 394006690 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394006691 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 394006692 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394006693 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394006694 non-specific DNA binding site [nucleotide binding]; other site 394006695 salt bridge; other site 394006696 sequence-specific DNA binding site [nucleotide binding]; other site 394006697 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 394006698 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 394006699 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 394006700 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 394006701 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 394006702 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 394006703 active site 394006704 Predicted PP-loop superfamily ATPase [General function prediction only]; Region: COG0603 394006705 Ligand Binding Site [chemical binding]; other site 394006706 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 394006707 AAA domain; Region: AAA_14; pfam13173 394006708 cell division control protein 6; Reviewed; Region: cdc6; PRK00411 394006709 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 394006710 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 394006711 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 394006712 Walker A/P-loop; other site 394006713 ATP binding site [chemical binding]; other site 394006714 Q-loop/lid; other site 394006715 ABC transporter signature motif; other site 394006716 Walker B; other site 394006717 D-loop; other site 394006718 H-loop/switch region; other site 394006719 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 394006720 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 394006721 NAD binding site [chemical binding]; other site 394006722 homodimer interface [polypeptide binding]; other site 394006723 active site 394006724 substrate binding site [chemical binding]; other site 394006725 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 394006726 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 394006727 O-Antigen ligase; Region: Wzy_C; pfam04932 394006728 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 394006729 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 394006730 Bacterial sugar transferase; Region: Bac_transf; pfam02397 394006731 Exopolysaccharide production repressor; Region: SyrA; pfam11089 394006732 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 394006733 active site 394006734 Staphylococcal nuclease homologues; Region: SNc; smart00318 394006735 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 394006736 Catalytic site; other site 394006737 Beta-glucanase/Beta-glucan synthetase [Carbohydrate transport and metabolism]; Region: SKN1; COG2273 394006738 lichenase, member of glycosyl hydrolase family 16; Region: GH16_lichenase; cd02175 394006739 active site 394006740 active site 394006741 catalytic residues [active] 394006742 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 394006743 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 394006744 Ligand binding site; other site 394006745 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 394006746 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 394006747 active site 394006748 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 394006749 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 394006750 active site 394006751 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 394006752 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 394006753 active site 394006754 tetramer interface; other site 394006755 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 394006756 Chain length determinant protein; Region: Wzz; pfam02706 394006757 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 394006758 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 394006759 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 394006760 dimer interface [polypeptide binding]; other site 394006761 substrate binding site [chemical binding]; other site 394006762 ATP binding site [chemical binding]; other site 394006763 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 394006764 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 394006765 dimer interface [polypeptide binding]; other site 394006766 decamer (pentamer of dimers) interface [polypeptide binding]; other site 394006767 catalytic triad [active] 394006768 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 394006769 Beta-lactamase; Region: Beta-lactamase; pfam00144 394006770 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 394006771 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 394006772 putative active site [active] 394006773 putative metal binding site [ion binding]; other site 394006774 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394006775 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394006776 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 394006777 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 394006778 dimerization interface [polypeptide binding]; other site 394006779 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394006780 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394006781 dimer interface [polypeptide binding]; other site 394006782 putative CheW interface [polypeptide binding]; other site 394006783 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394006784 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 394006785 active site 394006786 phosphorylation site [posttranslational modification] 394006787 intermolecular recognition site; other site 394006788 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394006789 DNA binding residues [nucleotide binding] 394006790 dimerization interface [polypeptide binding]; other site 394006791 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394006792 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394006793 DNA binding residues [nucleotide binding] 394006794 dimerization interface [polypeptide binding]; other site 394006795 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394006796 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394006797 DNA binding residues [nucleotide binding] 394006798 dimerization interface [polypeptide binding]; other site 394006799 potential frameshift: common BLAST hit: gi|116249084|ref|YP_764925.1| AraC family transcriptional regulator 394006800 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394006801 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394006802 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 394006803 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394006804 Walker A/P-loop; other site 394006805 ATP binding site [chemical binding]; other site 394006806 Q-loop/lid; other site 394006807 ABC transporter signature motif; other site 394006808 Walker B; other site 394006809 D-loop; other site 394006810 H-loop/switch region; other site 394006811 TOBE domain; Region: TOBE_2; pfam08402 394006812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3533 394006813 Putative glycosyl hydrolase of unknown function (DUF1680); Region: DUF1680; pfam07944 394006814 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394006815 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394006816 dimer interface [polypeptide binding]; other site 394006817 conserved gate region; other site 394006818 putative PBP binding loops; other site 394006819 ABC-ATPase subunit interface; other site 394006820 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394006821 putative PBP binding loops; other site 394006822 ABC-ATPase subunit interface; other site 394006823 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394006824 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394006825 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394006826 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394006827 DNA binding site [nucleotide binding] 394006828 domain linker motif; other site 394006829 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 394006830 dimerization interface [polypeptide binding]; other site 394006831 ligand binding site [chemical binding]; other site 394006832 hypothetical protein; Provisional; Region: PRK14013 394006833 Protein of unknown function (DUF982); Region: DUF982; pfam06169 394006834 Protein of unknown function (DUF982); Region: DUF982; pfam06169 394006835 Low affinity iron permease; Region: Iron_permease; pfam04120 394006836 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394006837 classical (c) SDRs; Region: SDR_c; cd05233 394006838 NAD(P) binding site [chemical binding]; other site 394006839 active site 394006840 Protein of unknown function (DUF982); Region: DUF982; pfam06169 394006841 FOG: CBS domain [General function prediction only]; Region: COG0517 394006842 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 394006843 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 394006844 RNA polymerase sigma factor; Provisional; Region: PRK12547 394006845 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394006846 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 394006847 DNA binding residues [nucleotide binding] 394006848 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 394006849 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 394006850 Domain of unknown function DUF21; Region: DUF21; pfam01595 394006851 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 394006852 Transporter associated domain; Region: CorC_HlyC; smart01091 394006853 metabolite-proton symporter; Region: 2A0106; TIGR00883 394006854 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394006855 putative substrate translocation pore; other site 394006856 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 394006857 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 394006858 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 394006859 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 394006860 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 394006861 D-pathway; other site 394006862 Putative ubiquinol binding site [chemical binding]; other site 394006863 Low-spin heme (heme b) binding site [chemical binding]; other site 394006864 Putative water exit pathway; other site 394006865 Binuclear center (heme o3/CuB) [ion binding]; other site 394006866 K-pathway; other site 394006867 Putative proton exit pathway; other site 394006868 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 394006869 Subunit I/III interface [polypeptide binding]; other site 394006870 Subunit III/IV interface [polypeptide binding]; other site 394006871 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 394006872 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 394006873 Protein of unknown function (DUF992); Region: DUF992; pfam06186 394006874 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5664 394006875 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394006876 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 394006877 putative DNA binding site [nucleotide binding]; other site 394006878 putative Zn2+ binding site [ion binding]; other site 394006879 AsnC family; Region: AsnC_trans_reg; pfam01037 394006880 ornithine cyclodeaminase; Validated; Region: PRK07589 394006881 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 394006882 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 394006883 Amidinotransferase; Region: Amidinotransf; pfam02274 394006884 Zinc-dependent metalloprotease, serralysin_like subfamily. Serralysins and related proteases are important virulence factors in pathogenic bacteria. They may be secreted into the medium via a mechanism found in gram-negative bacteria, that does not...; Region: ZnMc_serralysin_like; cd04277 394006885 active site 394006886 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 394006887 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394006888 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394006889 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 394006890 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 394006891 HlyD family secretion protein; Region: HlyD_3; pfam13437 394006892 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 394006893 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394006894 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394006895 non-specific DNA binding site [nucleotide binding]; other site 394006896 salt bridge; other site 394006897 sequence-specific DNA binding site [nucleotide binding]; other site 394006898 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 394006899 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394006900 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394006901 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 394006902 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 394006903 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 394006904 TadE-like protein; Region: TadE; pfam07811 394006905 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 394006906 HAMP domain; Region: HAMP; pfam00672 394006907 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394006908 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394006909 dimer interface [polypeptide binding]; other site 394006910 putative CheW interface [polypeptide binding]; other site 394006911 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 394006912 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 394006913 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 394006914 active site 394006915 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394006916 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_6; cd04955 394006917 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394006918 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 394006919 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 394006920 Putative catalytic NodB homology domain of gellan lyase and similar proteins; Region: CE4_GLA_like_6s; cd10967 394006921 putative active site [active] 394006922 putative metal binding site [ion binding]; other site 394006923 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 394006924 O-Antigen ligase; Region: Wzy_C; pfam04932 394006925 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 394006926 Chain length determinant protein; Region: Wzz; cl15801 394006927 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 394006928 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 394006929 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 394006930 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394006931 S-adenosylmethionine binding site [chemical binding]; other site 394006932 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 394006933 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 394006934 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 394006935 Switch I; other site 394006936 Switch II; other site 394006937 septum formation inhibitor; Reviewed; Region: minC; PRK05177 394006938 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 394006939 NAD synthetase; Reviewed; Region: nadE; PRK00876 394006940 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 394006941 homodimer interface [polypeptide binding]; other site 394006942 NAD binding pocket [chemical binding]; other site 394006943 ATP binding pocket [chemical binding]; other site 394006944 Mg binding site [ion binding]; other site 394006945 active-site loop [active] 394006946 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 394006947 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 394006948 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 394006949 acyl-activating enzyme (AAE) consensus motif; other site 394006950 acyl-activating enzyme (AAE) consensus motif; other site 394006951 putative AMP binding site [chemical binding]; other site 394006952 putative active site [active] 394006953 putative CoA binding site [chemical binding]; other site 394006954 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 394006955 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 394006956 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 394006957 active site 394006958 dimer interface [polypeptide binding]; other site 394006959 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 394006960 Ligand Binding Site [chemical binding]; other site 394006961 Molecular Tunnel; other site 394006962 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 394006963 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 394006964 HlyD family secretion protein; Region: HlyD_3; pfam13437 394006965 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 394006966 Protein export membrane protein; Region: SecD_SecF; cl14618 394006967 mannonate dehydratase; Provisional; Region: PRK03906 394006968 mannonate dehydratase; Region: uxuA; TIGR00695 394006969 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 394006970 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 394006971 putative NAD(P) binding site [chemical binding]; other site 394006972 catalytic Zn binding site [ion binding]; other site 394006973 DctM-like transporters; Region: DctM; pfam06808 394006974 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 394006975 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 394006976 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 394006977 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 394006978 Transcriptional regulators [Transcription]; Region: FadR; COG2186 394006979 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394006980 DNA-binding site [nucleotide binding]; DNA binding site 394006981 FCD domain; Region: FCD; pfam07729 394006982 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 394006983 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 394006984 putative hydrophobic ligand binding site [chemical binding]; other site 394006985 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 394006986 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 394006987 putative dimer interface [polypeptide binding]; other site 394006988 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 394006989 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 394006990 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 394006991 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394006992 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 394006993 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 394006994 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 394006995 E3 interaction surface; other site 394006996 lipoyl attachment site [posttranslational modification]; other site 394006997 e3 binding domain; Region: E3_binding; pfam02817 394006998 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 394006999 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 394007000 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 394007001 alpha subunit interface [polypeptide binding]; other site 394007002 TPP binding site [chemical binding]; other site 394007003 heterodimer interface [polypeptide binding]; other site 394007004 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 394007005 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 394007006 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 394007007 tetramer interface [polypeptide binding]; other site 394007008 TPP-binding site [chemical binding]; other site 394007009 heterodimer interface [polypeptide binding]; other site 394007010 phosphorylation loop region [posttranslational modification] 394007011 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 394007012 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 394007013 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 394007014 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 394007015 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 394007016 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 394007017 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394007018 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394007019 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394007020 conserved gate region; other site 394007021 dimer interface [polypeptide binding]; other site 394007022 putative PBP binding loops; other site 394007023 ABC-ATPase subunit interface; other site 394007024 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394007025 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394007026 dimer interface [polypeptide binding]; other site 394007027 conserved gate region; other site 394007028 putative PBP binding loops; other site 394007029 ABC-ATPase subunit interface; other site 394007030 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 394007031 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394007032 Walker A/P-loop; other site 394007033 ATP binding site [chemical binding]; other site 394007034 Q-loop/lid; other site 394007035 ABC transporter signature motif; other site 394007036 Walker B; other site 394007037 D-loop; other site 394007038 H-loop/switch region; other site 394007039 TOBE domain; Region: TOBE_2; pfam08402 394007040 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 394007041 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 394007042 substrate binding site [chemical binding]; other site 394007043 ATP binding site [chemical binding]; other site 394007044 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 394007045 active site 394007046 lipoyl synthase; Provisional; Region: PRK05481 394007047 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394007048 FeS/SAM binding site; other site 394007049 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 394007050 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 394007051 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 394007052 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 394007053 dimer interface [polypeptide binding]; other site 394007054 active site 394007055 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 394007056 substrate binding site [chemical binding]; other site 394007057 catalytic residue [active] 394007058 serine racemase; Region: PLN02970 394007059 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 394007060 tetramer interface [polypeptide binding]; other site 394007061 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394007062 catalytic residue [active] 394007063 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 394007064 homodimer interface [polypeptide binding]; other site 394007065 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394007066 catalytic residue [active] 394007067 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 394007068 Transcriptional regulator [Transcription]; Region: IclR; COG1414 394007069 Bacterial transcriptional regulator; Region: IclR; pfam01614 394007070 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 394007071 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 394007072 Cysteine-rich domain; Region: CCG; pfam02754 394007073 Cysteine-rich domain; Region: CCG; pfam02754 394007074 FAD binding domain; Region: FAD_binding_4; pfam01565 394007075 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 394007076 FAD binding domain; Region: FAD_binding_4; pfam01565 394007077 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 394007078 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 394007079 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 394007080 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 394007081 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 394007082 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 394007083 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 394007084 carboxyltransferase (CT) interaction site; other site 394007085 biotinylation site [posttranslational modification]; other site 394007086 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 394007087 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 394007088 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 394007089 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 394007090 putative active site [active] 394007091 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394007092 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394007093 Walker A/P-loop; other site 394007094 ATP binding site [chemical binding]; other site 394007095 Q-loop/lid; other site 394007096 ABC transporter signature motif; other site 394007097 Walker B; other site 394007098 D-loop; other site 394007099 H-loop/switch region; other site 394007100 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394007101 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394007102 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394007103 DNA binding site [nucleotide binding] 394007104 domain linker motif; other site 394007105 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 394007106 dimerization interface [polypeptide binding]; other site 394007107 ligand binding site [chemical binding]; other site 394007108 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394007109 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394007110 DNA binding site [nucleotide binding] 394007111 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 394007112 ligand binding site [chemical binding]; other site 394007113 dimerization interface [polypeptide binding]; other site 394007114 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394007115 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394007116 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394007117 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394007118 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394007119 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 394007120 dimerization interface [polypeptide binding]; other site 394007121 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 394007122 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 394007123 tetramer interface [polypeptide binding]; other site 394007124 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394007125 catalytic residue [active] 394007126 Domain of unknown function (DUF4392); Region: DUF4392; pfam14336 394007127 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 394007128 homotrimer interaction site [polypeptide binding]; other site 394007129 putative active site [active] 394007130 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 394007131 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 394007132 E3 interaction surface; other site 394007133 lipoyl attachment site [posttranslational modification]; other site 394007134 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 394007135 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 394007136 alpha subunit interface [polypeptide binding]; other site 394007137 TPP binding site [chemical binding]; other site 394007138 heterodimer interface [polypeptide binding]; other site 394007139 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 394007140 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 394007141 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 394007142 tetramer interface [polypeptide binding]; other site 394007143 TPP-binding site [chemical binding]; other site 394007144 heterodimer interface [polypeptide binding]; other site 394007145 phosphorylation loop region [posttranslational modification] 394007146 haloalkane dehalogenase; Provisional; Region: PRK03592 394007147 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 394007148 classical (c) SDRs; Region: SDR_c; cd05233 394007149 NAD(P) binding site [chemical binding]; other site 394007150 active site 394007151 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394007152 dimer interface [polypeptide binding]; other site 394007153 conserved gate region; other site 394007154 putative PBP binding loops; other site 394007155 ABC-ATPase subunit interface; other site 394007156 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394007157 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394007158 dimer interface [polypeptide binding]; other site 394007159 conserved gate region; other site 394007160 putative PBP binding loops; other site 394007161 ABC-ATPase subunit interface; other site 394007162 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 394007163 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394007164 Walker A/P-loop; other site 394007165 ATP binding site [chemical binding]; other site 394007166 Q-loop/lid; other site 394007167 ABC transporter signature motif; other site 394007168 Walker B; other site 394007169 D-loop; other site 394007170 H-loop/switch region; other site 394007171 TOBE domain; Region: TOBE_2; pfam08402 394007172 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 394007173 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 394007174 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394007175 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394007176 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394007177 classical (c) SDRs; Region: SDR_c; cd05233 394007178 NAD(P) binding site [chemical binding]; other site 394007179 active site 394007180 Uncharacterized conserved protein [Function unknown]; Region: COG1359 394007181 OsmC-like protein; Region: OsmC; pfam02566 394007182 hypothetical protein; Provisional; Region: PRK05463 394007183 Domain of unknown function (DUF336); Region: DUF336; pfam03928 394007184 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394007185 classical (c) SDRs; Region: SDR_c; cd05233 394007186 NAD(P) binding site [chemical binding]; other site 394007187 active site 394007188 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 394007189 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 394007190 E3 interaction surface; other site 394007191 lipoyl attachment site [posttranslational modification]; other site 394007192 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 394007193 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 394007194 alpha subunit interface [polypeptide binding]; other site 394007195 TPP binding site [chemical binding]; other site 394007196 heterodimer interface [polypeptide binding]; other site 394007197 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 394007198 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 394007199 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 394007200 tetramer interface [polypeptide binding]; other site 394007201 TPP-binding site [chemical binding]; other site 394007202 heterodimer interface [polypeptide binding]; other site 394007203 phosphorylation loop region [posttranslational modification] 394007204 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394007205 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394007206 TM-ABC transporter signature motif; other site 394007207 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 394007208 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 394007209 putative ligand binding site [chemical binding]; other site 394007210 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 394007211 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 394007212 DNA interaction; other site 394007213 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394007214 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394007215 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394007216 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 394007217 active site 394007218 nucleophile elbow; other site 394007219 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 394007220 active site 394007221 NTP binding site [chemical binding]; other site 394007222 metal binding triad [ion binding]; metal-binding site 394007223 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 394007224 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 394007225 NAD(P) binding site [chemical binding]; other site 394007226 catalytic residues [active] 394007227 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 394007228 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 394007229 Transcriptional regulator [Transcription]; Region: IclR; COG1414 394007230 Bacterial transcriptional regulator; Region: IclR; pfam01614 394007231 hypothetical protein; Provisional; Region: PRK02399 394007232 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 394007233 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 394007234 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394007235 motif II; other site 394007236 hypothetical protein; Provisional; Region: PRK07481 394007237 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394007238 inhibitor-cofactor binding pocket; inhibition site 394007239 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394007240 catalytic residue [active] 394007241 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 394007242 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394007243 inhibitor-cofactor binding pocket; inhibition site 394007244 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394007245 catalytic residue [active] 394007246 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 394007247 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 394007248 active site 394007249 ATP binding site [chemical binding]; other site 394007250 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 394007251 Cupin domain; Region: Cupin_2; cl17218 394007252 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394007253 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-2; TIGR02310 394007254 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 394007255 Flavin Reductases; Region: FlaRed; cl00801 394007256 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 394007257 putative substrate binding pocket [chemical binding]; other site 394007258 trimer interface [polypeptide binding]; other site 394007259 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 394007260 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 394007261 NAD binding site [chemical binding]; other site 394007262 catalytic residues [active] 394007263 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 394007264 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 394007265 tetramer interface [polypeptide binding]; other site 394007266 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 394007267 tetramer interface [polypeptide binding]; other site 394007268 active site 394007269 metal binding site [ion binding]; metal-binding site 394007270 tyrosine decarboxylase; Region: PLN02880 394007271 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 394007272 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394007273 catalytic residue [active] 394007274 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 394007275 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 394007276 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 394007277 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 394007278 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 394007279 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 394007280 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 394007281 dimer interface [polypeptide binding]; other site 394007282 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394007283 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394007284 active site 394007285 catalytic tetrad [active] 394007286 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394007287 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394007288 dimer interface [polypeptide binding]; other site 394007289 conserved gate region; other site 394007290 putative PBP binding loops; other site 394007291 ABC-ATPase subunit interface; other site 394007292 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394007293 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394007294 dimer interface [polypeptide binding]; other site 394007295 conserved gate region; other site 394007296 putative PBP binding loops; other site 394007297 ABC-ATPase subunit interface; other site 394007298 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394007299 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394007300 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 394007301 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394007302 Walker A/P-loop; other site 394007303 ATP binding site [chemical binding]; other site 394007304 Q-loop/lid; other site 394007305 ABC transporter signature motif; other site 394007306 Walker B; other site 394007307 D-loop; other site 394007308 H-loop/switch region; other site 394007309 TOBE domain; Region: TOBE_2; pfam08402 394007310 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394007311 classical (c) SDRs; Region: SDR_c; cd05233 394007312 NAD(P) binding site [chemical binding]; other site 394007313 active site 394007314 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394007315 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 394007316 putative NAD(P) binding site [chemical binding]; other site 394007317 active site 394007318 putative substrate binding site [chemical binding]; other site 394007319 Transcriptional regulators [Transcription]; Region: FadR; COG2186 394007320 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394007321 DNA-binding site [nucleotide binding]; DNA binding site 394007322 FCD domain; Region: FCD; pfam07729 394007323 putative aldolase; Validated; Region: PRK08130 394007324 intersubunit interface [polypeptide binding]; other site 394007325 active site 394007326 Zn2+ binding site [ion binding]; other site 394007327 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394007328 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394007329 DNA binding site [nucleotide binding] 394007330 domain linker motif; other site 394007331 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 394007332 putative dimerization interface [polypeptide binding]; other site 394007333 putative ligand binding site [chemical binding]; other site 394007334 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 394007335 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394007336 putative substrate translocation pore; other site 394007337 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 394007338 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 394007339 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 394007340 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 394007341 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 394007342 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 394007343 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 394007344 ureidoglycolate hydrolase; Provisional; Region: PRK13395 394007345 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 394007346 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 394007347 MOFRL family; Region: MOFRL; pfam05161 394007348 tartronate semialdehyde reductase; Provisional; Region: PRK15059 394007349 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 394007350 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 394007351 glyoxylate carboligase; Provisional; Region: PRK11269 394007352 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 394007353 PYR/PP interface [polypeptide binding]; other site 394007354 dimer interface [polypeptide binding]; other site 394007355 TPP binding site [chemical binding]; other site 394007356 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 394007357 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 394007358 TPP-binding site [chemical binding]; other site 394007359 transcriptional repressor IclR; Provisional; Region: PRK11569 394007360 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 394007361 Bacterial transcriptional regulator; Region: IclR; pfam01614 394007362 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 394007363 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394007364 The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_XapR; cd08449 394007365 putative dimerization interface [polypeptide binding]; other site 394007366 putative substrate binding pocket [chemical binding]; other site 394007367 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 394007368 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 394007369 hypothetical protein; Provisional; Region: PRK11171 394007370 Cupin domain; Region: Cupin_2; pfam07883 394007371 Cupin domain; Region: Cupin_2; pfam07883 394007372 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 394007373 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 394007374 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 394007375 active site 394007376 DNA binding site [nucleotide binding] 394007377 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 394007378 DNA binding site [nucleotide binding] 394007379 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 394007380 nucleotide binding site [chemical binding]; other site 394007381 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 394007382 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 394007383 putative DNA binding site [nucleotide binding]; other site 394007384 putative homodimer interface [polypeptide binding]; other site 394007385 TPR repeat; Region: TPR_11; pfam13414 394007386 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394007387 binding surface 394007388 TPR motif; other site 394007389 TPR repeat; Region: TPR_11; pfam13414 394007390 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 394007391 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 394007392 putative catalytic site [active] 394007393 putative phosphate binding site [ion binding]; other site 394007394 active site 394007395 metal binding site A [ion binding]; metal-binding site 394007396 DNA binding site [nucleotide binding] 394007397 putative AP binding site [nucleotide binding]; other site 394007398 putative metal binding site B [ion binding]; other site 394007399 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 394007400 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 394007401 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 394007402 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 394007403 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 394007404 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 394007405 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 394007406 putative ligand binding site [chemical binding]; other site 394007407 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394007408 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394007409 Walker A/P-loop; other site 394007410 ATP binding site [chemical binding]; other site 394007411 Q-loop/lid; other site 394007412 ABC transporter signature motif; other site 394007413 Walker B; other site 394007414 D-loop; other site 394007415 H-loop/switch region; other site 394007416 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394007417 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394007418 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394007419 TM-ABC transporter signature motif; other site 394007420 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 394007421 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 394007422 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394007423 ATP binding site [chemical binding]; other site 394007424 Mg2+ binding site [ion binding]; other site 394007425 G-X-G motif; other site 394007426 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394007427 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394007428 active site 394007429 phosphorylation site [posttranslational modification] 394007430 intermolecular recognition site; other site 394007431 dimerization interface [polypeptide binding]; other site 394007432 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394007433 DNA binding site [nucleotide binding] 394007434 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 394007435 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 394007436 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 394007437 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 394007438 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 394007439 HAD-superfamily subfamily IIA hydrolase, TIGR01458; Region: HAD-SF-IIA-hyp3 394007440 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 394007441 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394007442 glutamine synthetase; Region: PLN02284 394007443 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 394007444 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 394007445 Protein of unknown function (DUF2735); Region: DUF2735; pfam10931 394007446 Uncharacterized conserved protein [Function unknown]; Region: COG1262 394007447 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 394007448 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 394007449 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394007450 Walker A/P-loop; other site 394007451 ATP binding site [chemical binding]; other site 394007452 Q-loop/lid; other site 394007453 ABC transporter signature motif; other site 394007454 Walker B; other site 394007455 D-loop; other site 394007456 H-loop/switch region; other site 394007457 TOBE domain; Region: TOBE_2; pfam08402 394007458 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394007459 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394007460 dimer interface [polypeptide binding]; other site 394007461 conserved gate region; other site 394007462 putative PBP binding loops; other site 394007463 ABC-ATPase subunit interface; other site 394007464 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 394007465 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394007466 dimer interface [polypeptide binding]; other site 394007467 conserved gate region; other site 394007468 putative PBP binding loops; other site 394007469 ABC-ATPase subunit interface; other site 394007470 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394007471 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394007472 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 394007473 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 394007474 active site 394007475 Transcriptional regulators [Transcription]; Region: GntR; COG1802 394007476 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394007477 DNA-binding site [nucleotide binding]; DNA binding site 394007478 FCD domain; Region: FCD; pfam07729 394007479 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 394007480 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 394007481 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 394007482 sulfite oxidase; Provisional; Region: PLN00177 394007483 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 394007484 Moco binding site; other site 394007485 metal coordination site [ion binding]; other site 394007486 dimerization interface [polypeptide binding]; other site 394007487 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 394007488 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394007489 Walker A/P-loop; other site 394007490 ATP binding site [chemical binding]; other site 394007491 Q-loop/lid; other site 394007492 ABC transporter signature motif; other site 394007493 Walker B; other site 394007494 D-loop; other site 394007495 H-loop/switch region; other site 394007496 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394007497 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394007498 TM-ABC transporter signature motif; other site 394007499 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394007500 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394007501 TM-ABC transporter signature motif; other site 394007502 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 394007503 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 394007504 Carbonic anhydrase [Inorganic ion transport and metabolism]; Region: Cah; COG3338 394007505 Carbonic anhydrase alpha, prokaryotic-like subfamily. Carbonic anhydrases (CAs) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism: a nucleophilic attack of a zinc-bound hydroxide ion on carbon...; Region: alpha_CA_prokaryotic_like; cd03124 394007506 active site 394007507 zinc binding site [ion binding]; other site 394007508 NGR_b20830; temperature sensor, ROSE, RF00435 394007509 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 394007510 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394007511 NAD(P) binding site [chemical binding]; other site 394007512 active site 394007513 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 394007514 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 394007515 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 394007516 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394007517 substrate binding site [chemical binding]; other site 394007518 oxyanion hole (OAH) forming residues; other site 394007519 trimer interface [polypeptide binding]; other site 394007520 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 394007521 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 394007522 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 394007523 substrate binding pocket [chemical binding]; other site 394007524 FAD binding site [chemical binding]; other site 394007525 catalytic base [active] 394007526 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394007527 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394007528 non-specific DNA binding site [nucleotide binding]; other site 394007529 salt bridge; other site 394007530 sequence-specific DNA binding site [nucleotide binding]; other site 394007531 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 394007532 Domain of unknown function (DUF955); Region: DUF955; pfam06114 394007533 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 394007534 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 394007535 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 394007536 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 394007537 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 394007538 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 394007539 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 394007540 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 394007541 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 394007542 carboxyltransferase (CT) interaction site; other site 394007543 biotinylation site [posttranslational modification]; other site 394007544 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 394007545 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 394007546 active site 394007547 substrate binding site [chemical binding]; other site 394007548 coenzyme B12 binding site [chemical binding]; other site 394007549 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 394007550 B12 binding site [chemical binding]; other site 394007551 cobalt ligand [ion binding]; other site 394007552 Citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CCL cleaves citryl-CoA (CiCoA) to acetyl-CoA (AcCoA) and oxaloacetate (OAA); Region: CCL_ACL-C; cd06100 394007553 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 394007554 active site 394007555 oxalacetate binding site [chemical binding]; other site 394007556 citrylCoA binding site [chemical binding]; other site 394007557 coenzyme A binding site [chemical binding]; other site 394007558 catalytic triad [active] 394007559 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 394007560 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 394007561 acyl-activating enzyme (AAE) consensus motif; other site 394007562 AMP binding site [chemical binding]; other site 394007563 active site 394007564 CoA binding site [chemical binding]; other site 394007565 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 394007566 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394007567 Zn binding site [ion binding]; other site 394007568 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 394007569 C-terminal domain interface [polypeptide binding]; other site 394007570 GSH binding site (G-site) [chemical binding]; other site 394007571 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394007572 dimer interface [polypeptide binding]; other site 394007573 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 394007574 N-terminal domain interface [polypeptide binding]; other site 394007575 dimer interface [polypeptide binding]; other site 394007576 substrate binding pocket (H-site) [chemical binding]; other site 394007577 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 394007578 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 394007579 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 394007580 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394007581 DNA-binding site [nucleotide binding]; DNA binding site 394007582 UTRA domain; Region: UTRA; pfam07702 394007583 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 394007584 carbon-phosphorus lyase complex subunit; Validated; Region: phnH; PRK10147 394007585 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnI; COG3626 394007586 Uncharacterized enzyme of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnJ; COG3627 394007587 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 394007588 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394007589 Walker A/P-loop; other site 394007590 ATP binding site [chemical binding]; other site 394007591 Q-loop/lid; other site 394007592 ABC transporter signature motif; other site 394007593 Walker B; other site 394007594 D-loop; other site 394007595 H-loop/switch region; other site 394007596 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394007597 ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PhnL; COG4778 394007598 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394007599 Walker A/P-loop; other site 394007600 ATP binding site [chemical binding]; other site 394007601 Q-loop/lid; other site 394007602 ABC transporter signature motif; other site 394007603 Walker B; other site 394007604 D-loop; other site 394007605 H-loop/switch region; other site 394007606 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 394007607 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 394007608 trimer interface [polypeptide binding]; other site 394007609 active site 394007610 substrate binding site [chemical binding]; other site 394007611 CoA binding site [chemical binding]; other site 394007612 dihydroxyacetone kinase; Provisional; Region: PRK14479 394007613 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 394007614 DAK2 domain; Region: Dak2; pfam02734 394007615 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 394007616 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 394007617 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 394007618 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 394007619 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 394007620 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 394007621 Transcriptional regulators [Transcription]; Region: FadR; COG2186 394007622 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394007623 DNA-binding site [nucleotide binding]; DNA binding site 394007624 FCD domain; Region: FCD; pfam07729 394007625 FecR protein; Region: FecR; pfam04773 394007626 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 394007627 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394007628 TPR motif; other site 394007629 binding surface 394007630 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394007631 TPR motif; other site 394007632 binding surface 394007633 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 394007634 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 394007635 CHASE2 domain; Region: CHASE2; pfam05226 394007636 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394007637 cyclase homology domain; Region: CHD; cd07302 394007638 nucleotidyl binding site; other site 394007639 metal binding site [ion binding]; metal-binding site 394007640 dimer interface [polypeptide binding]; other site 394007641 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK05975 394007642 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 394007643 tetramer interface [polypeptide binding]; other site 394007644 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 394007645 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 394007646 heterodimer interface [polypeptide binding]; other site 394007647 active site 394007648 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 394007649 heterodimer interface [polypeptide binding]; other site 394007650 multimer interface [polypeptide binding]; other site 394007651 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 394007652 active site 394007653 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 394007654 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 394007655 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 394007656 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 394007657 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394007658 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394007659 dimerization interface [polypeptide binding]; other site 394007660 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 394007661 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 394007662 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 394007663 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 394007664 Moco binding site; other site 394007665 metal coordination site [ion binding]; other site 394007666 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394007667 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 394007668 colanic acid biosynthesis glycosyltransferase WcaL; Provisional; Region: PRK15427 394007669 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 394007670 putative ADP-binding pocket [chemical binding]; other site 394007671 colanic acid exporter; Provisional; Region: PRK10459 394007672 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 394007673 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 394007674 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 394007675 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 394007676 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 394007677 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394007678 putative substrate translocation pore; other site 394007679 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 394007680 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 394007681 HlyD family secretion protein; Region: HlyD_3; pfam13437 394007682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394007683 NADH(P)-binding; Region: NAD_binding_10; pfam13460 394007684 NAD(P) binding site [chemical binding]; other site 394007685 active site 394007686 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394007687 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394007688 DNA binding site [nucleotide binding] 394007689 Predicted integral membrane protein [Function unknown]; Region: COG5616 394007690 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394007691 TPR motif; other site 394007692 TPR repeat; Region: TPR_11; pfam13414 394007693 binding surface 394007694 potential frameshift: common BLAST hit: gi|92116331|ref|YP_576060.1| general substrate transporter 394007695 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394007696 metabolite-proton symporter; Region: 2A0106; TIGR00883 394007697 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 394007698 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 394007699 Bacterial transcriptional regulator; Region: IclR; pfam01614 394007700 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 394007701 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 394007702 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 394007703 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 394007704 dimer interface [polypeptide binding]; other site 394007705 active site 394007706 integron integrase; Region: integrase_gron; TIGR02249 394007707 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 394007708 Int/Topo IB signature motif; other site 394007709 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 394007710 Putative transposase; Region: Y2_Tnp; pfam04986 394007711 Homeodomain-like domain; Region: HTH_23; cl17451 394007712 Winged helix-turn helix; Region: HTH_29; pfam13551 394007713 DDE superfamily endonuclease; Region: DDE_3; pfam13358 394007714 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 394007715 acylphosphatase; Provisional; Region: PRK14425 394007716 RNA polymerase sigma factor; Provisional; Region: PRK11922 394007717 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394007718 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 394007719 DNA binding residues [nucleotide binding] 394007720 Predicted outer membrane protein [Function unknown]; Region: COG3652 394007721 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 394007722 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 394007723 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 394007724 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 394007725 Walker A/P-loop; other site 394007726 ATP binding site [chemical binding]; other site 394007727 Q-loop/lid; other site 394007728 ABC transporter signature motif; other site 394007729 Walker B; other site 394007730 D-loop; other site 394007731 H-loop/switch region; other site 394007732 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 394007733 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394007734 ABC-ATPase subunit interface; other site 394007735 putative PBP binding loops; other site 394007736 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 394007737 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394007738 dimer interface [polypeptide binding]; other site 394007739 conserved gate region; other site 394007740 putative PBP binding loops; other site 394007741 ABC-ATPase subunit interface; other site 394007742 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 394007743 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394007744 substrate binding pocket [chemical binding]; other site 394007745 membrane-bound complex binding site; other site 394007746 hinge residues; other site 394007747 Transcriptional regulators [Transcription]; Region: GntR; COG1802 394007748 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394007749 DNA-binding site [nucleotide binding]; DNA binding site 394007750 FCD domain; Region: FCD; pfam07729 394007751 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 394007752 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 394007753 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 394007754 Ferritin-like domain; Region: Ferritin_2; pfam13668 394007755 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 394007756 Predicted membrane protein [Function unknown]; Region: COG2259 394007757 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 394007758 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394007759 DNA binding site [nucleotide binding] 394007760 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 394007761 putative ligand binding site [chemical binding]; other site 394007762 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 394007763 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 394007764 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394007765 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394007766 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394007767 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 394007768 ParB-like nuclease domain; Region: ParBc; pfam02195 394007769 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 394007770 MerR family regulatory protein; Region: MerR; pfam00376 394007771 DNA binding residues [nucleotide binding] 394007772 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 394007773 P-loop; other site 394007774 Magnesium ion binding site [ion binding]; other site 394007775 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 394007776 Magnesium ion binding site [ion binding]; other site 394007777 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 394007778 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 394007779 putative active site pocket [active] 394007780 metal binding site [ion binding]; metal-binding site 394007781 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394007782 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394007783 TM-ABC transporter signature motif; other site 394007784 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394007785 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394007786 TM-ABC transporter signature motif; other site 394007787 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394007788 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394007789 Walker A/P-loop; other site 394007790 ATP binding site [chemical binding]; other site 394007791 Q-loop/lid; other site 394007792 ABC transporter signature motif; other site 394007793 Walker B; other site 394007794 D-loop; other site 394007795 H-loop/switch region; other site 394007796 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394007797 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 394007798 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 394007799 putative ligand binding site [chemical binding]; other site 394007800 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 394007801 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 394007802 Walker A/P-loop; other site 394007803 ATP binding site [chemical binding]; other site 394007804 Q-loop/lid; other site 394007805 ABC transporter signature motif; other site 394007806 Walker B; other site 394007807 D-loop; other site 394007808 H-loop/switch region; other site 394007809 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 394007810 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 394007811 Walker A/P-loop; other site 394007812 ATP binding site [chemical binding]; other site 394007813 Q-loop/lid; other site 394007814 ABC transporter signature motif; other site 394007815 Walker B; other site 394007816 D-loop; other site 394007817 H-loop/switch region; other site 394007818 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 394007819 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 394007820 TM-ABC transporter signature motif; other site 394007821 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 394007822 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394007823 TM-ABC transporter signature motif; other site 394007824 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 394007825 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 394007826 putative ligand binding site [chemical binding]; other site 394007827 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 394007828 ArsC family; Region: ArsC; pfam03960 394007829 catalytic residues [active] 394007830 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 394007831 amphipathic channel; other site 394007832 Asn-Pro-Ala signature motifs; other site 394007833 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 394007834 Low molecular weight phosphatase family; Region: LMWPc; cl00105 394007835 active site 394007836 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394007837 putative DNA binding site [nucleotide binding]; other site 394007838 putative Zn2+ binding site [ion binding]; other site 394007839 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 394007840 Na binding site [ion binding]; other site 394007841 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 394007842 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394007843 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394007844 dimer interface [polypeptide binding]; other site 394007845 phosphorylation site [posttranslational modification] 394007846 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394007847 ATP binding site [chemical binding]; other site 394007848 Mg2+ binding site [ion binding]; other site 394007849 G-X-G motif; other site 394007850 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 394007851 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394007852 active site 394007853 phosphorylation site [posttranslational modification] 394007854 intermolecular recognition site; other site 394007855 dimerization interface [polypeptide binding]; other site 394007856 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394007857 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394007858 active site 394007859 phosphorylation site [posttranslational modification] 394007860 intermolecular recognition site; other site 394007861 dimerization interface [polypeptide binding]; other site 394007862 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394007863 DNA binding residues [nucleotide binding] 394007864 dimerization interface [polypeptide binding]; other site 394007865 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 394007866 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 394007867 Transposase [DNA replication, recombination, and repair]; Region: COG5433 394007868 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 394007869 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 394007870 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 394007871 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394007872 dimer interface [polypeptide binding]; other site 394007873 phosphorylation site [posttranslational modification] 394007874 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394007875 ATP binding site [chemical binding]; other site 394007876 Mg2+ binding site [ion binding]; other site 394007877 G-X-G motif; other site 394007878 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 394007879 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394007880 active site 394007881 phosphorylation site [posttranslational modification] 394007882 intermolecular recognition site; other site 394007883 dimerization interface [polypeptide binding]; other site 394007884 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394007885 Walker A motif; other site 394007886 ATP binding site [chemical binding]; other site 394007887 Walker B motif; other site 394007888 arginine finger; other site 394007889 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 394007890 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 394007891 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394007892 DNA-binding site [nucleotide binding]; DNA binding site 394007893 UTRA domain; Region: UTRA; pfam07702 394007894 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 394007895 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS_1; cd05710 394007896 putative active site [active] 394007897 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 394007898 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 394007899 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 394007900 substrate binding site [chemical binding]; other site 394007901 ATP binding site [chemical binding]; other site 394007902 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 394007903 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 394007904 Walker A/P-loop; other site 394007905 ATP binding site [chemical binding]; other site 394007906 Q-loop/lid; other site 394007907 ABC transporter signature motif; other site 394007908 Walker B; other site 394007909 D-loop; other site 394007910 H-loop/switch region; other site 394007911 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 394007912 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394007913 dimer interface [polypeptide binding]; other site 394007914 conserved gate region; other site 394007915 putative PBP binding loops; other site 394007916 ABC-ATPase subunit interface; other site 394007917 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 394007918 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394007919 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 394007920 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394007921 substrate binding pocket [chemical binding]; other site 394007922 membrane-bound complex binding site; other site 394007923 hinge residues; other site 394007924 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 394007925 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 394007926 Ribulose bisphosphate carboxylase large chain; Region: RuBisCO_large; cl08232 394007927 dimer interface [polypeptide binding]; other site 394007928 catalytic residue [active] 394007929 metal binding site [ion binding]; metal-binding site 394007930 transcriptional regulator NanR; Provisional; Region: PRK03837 394007931 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394007932 DNA-binding site [nucleotide binding]; DNA binding site 394007933 Ribosomal protein S19e; Region: Ribosomal_S19e; cl00969 394007934 FCD domain; Region: FCD; pfam07729 394007935 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394007936 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394007937 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394007938 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394007939 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394007940 TM-ABC transporter signature motif; other site 394007941 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394007942 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394007943 Walker A/P-loop; other site 394007944 ATP binding site [chemical binding]; other site 394007945 Q-loop/lid; other site 394007946 ABC transporter signature motif; other site 394007947 Walker B; other site 394007948 D-loop; other site 394007949 H-loop/switch region; other site 394007950 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394007951 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5618 394007952 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 394007953 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 394007954 ligand binding site [chemical binding]; other site 394007955 dimerization interface [polypeptide binding]; other site 394007956 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 394007957 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 394007958 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 394007959 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394007960 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 394007961 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 394007962 catalytic loop [active] 394007963 iron binding site [ion binding]; other site 394007964 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 394007965 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 394007966 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 394007967 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 394007968 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 394007969 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 394007970 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 394007971 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 394007972 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 394007973 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 394007974 Transcriptional regulators [Transcription]; Region: FadR; COG2186 394007975 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394007976 DNA-binding site [nucleotide binding]; DNA binding site 394007977 FCD domain; Region: FCD; pfam07729 394007978 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394007979 extended (e) SDRs; Region: SDR_e; cd08946 394007980 NAD(P) binding site [chemical binding]; other site 394007981 active site 394007982 substrate binding site [chemical binding]; other site 394007983 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 394007984 nudix motif; other site 394007985 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 394007986 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 394007987 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 394007988 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 394007989 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 394007990 active site 394007991 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 394007992 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 394007993 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 394007994 putative NAD(P) binding site [chemical binding]; other site 394007995 catalytic Zn binding site [ion binding]; other site 394007996 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 394007997 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 394007998 putative ligand binding site [chemical binding]; other site 394007999 NAD binding site [chemical binding]; other site 394008000 catalytic site [active] 394008001 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 394008002 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 394008003 NADP binding site [chemical binding]; other site 394008004 homodimer interface [polypeptide binding]; other site 394008005 active site 394008006 AAA domain; Region: AAA_33; pfam13671 394008007 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 394008008 ATP-binding site [chemical binding]; other site 394008009 Gluconate-6-phosphate binding site [chemical binding]; other site 394008010 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 394008011 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 394008012 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394008013 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394008014 DNA binding site [nucleotide binding] 394008015 domain linker motif; other site 394008016 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 394008017 putative dimerization interface [polypeptide binding]; other site 394008018 putative ligand binding site [chemical binding]; other site 394008019 PemK-like protein; Region: PemK; pfam02452 394008020 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 394008021 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 394008022 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 394008023 Walker A/P-loop; other site 394008024 ATP binding site [chemical binding]; other site 394008025 Q-loop/lid; other site 394008026 ABC transporter signature motif; other site 394008027 Walker B; other site 394008028 D-loop; other site 394008029 H-loop/switch region; other site 394008030 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394008031 dimer interface [polypeptide binding]; other site 394008032 conserved gate region; other site 394008033 putative PBP binding loops; other site 394008034 ABC-ATPase subunit interface; other site 394008035 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394008036 dimer interface [polypeptide binding]; other site 394008037 conserved gate region; other site 394008038 ABC-ATPase subunit interface; other site 394008039 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394008040 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 394008041 substrate binding pocket [chemical binding]; other site 394008042 membrane-bound complex binding site; other site 394008043 hinge residues; other site 394008044 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394008045 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394008046 DNA binding site [nucleotide binding] 394008047 domain linker motif; other site 394008048 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 394008049 putative dimerization interface [polypeptide binding]; other site 394008050 putative ligand binding site [chemical binding]; other site 394008051 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_6; cd06315 394008052 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 394008053 putative ligand binding site [chemical binding]; other site 394008054 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394008055 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394008056 TM-ABC transporter signature motif; other site 394008057 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394008058 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394008059 Walker A/P-loop; other site 394008060 ATP binding site [chemical binding]; other site 394008061 Q-loop/lid; other site 394008062 ABC transporter signature motif; other site 394008063 Walker B; other site 394008064 D-loop; other site 394008065 H-loop/switch region; other site 394008066 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394008067 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 394008068 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 394008069 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 394008070 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 394008071 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 394008072 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 394008073 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 394008074 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 394008075 Transposase; Region: HTH_Tnp_1; pfam01527 394008076 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 394008077 BON domain; Region: BON; pfam04972 394008078 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 394008079 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 394008080 putative NAD(P) binding site [chemical binding]; other site 394008081 putative active site [active] 394008082 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 394008083 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394008084 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 394008085 dimerization interface [polypeptide binding]; other site 394008086 substrate binding pocket [chemical binding]; other site 394008087 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 394008088 dimerization interface [polypeptide binding]; other site 394008089 PAS domain; Region: PAS_9; pfam13426 394008090 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394008091 putative active site [active] 394008092 heme pocket [chemical binding]; other site 394008093 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394008094 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394008095 metal binding site [ion binding]; metal-binding site 394008096 active site 394008097 I-site; other site 394008098 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394008099 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 394008100 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 394008101 substrate binding pocket [chemical binding]; other site 394008102 membrane-bound complex binding site; other site 394008103 hinge residues; other site 394008104 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 394008105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394008106 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394008107 NAD(P) binding site [chemical binding]; other site 394008108 active site 394008109 Vitamin K epoxide reductase family in bacteria; Region: VKOR_2; cd12919 394008110 putative active site [active] 394008111 redox center [active] 394008112 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 394008113 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394008114 putative ADP-binding pocket [chemical binding]; other site 394008115 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 394008116 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 394008117 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 394008118 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 394008119 DctM-like transporters; Region: DctM; pfam06808 394008120 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 394008121 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394008122 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394008123 DNA binding site [nucleotide binding] 394008124 domain linker motif; other site 394008125 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 394008126 putative ligand binding site [chemical binding]; other site 394008127 putative dimerization interface [polypeptide binding]; other site 394008128 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 394008129 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 394008130 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 394008131 dimerization interface [polypeptide binding]; other site 394008132 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394008133 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394008134 dimer interface [polypeptide binding]; other site 394008135 putative CheW interface [polypeptide binding]; other site 394008136 camphor resistance protein CrcB; Provisional; Region: PRK14198 394008137 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394008138 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394008139 metal binding site [ion binding]; metal-binding site 394008140 active site 394008141 I-site; other site 394008142 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394008143 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394008144 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394008145 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394008146 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394008147 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 394008148 putative dimerization interface [polypeptide binding]; other site 394008149 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 394008150 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 394008151 ligand binding site [chemical binding]; other site 394008152 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394008153 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 394008154 TM-ABC transporter signature motif; other site 394008155 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 394008156 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 394008157 TM-ABC transporter signature motif; other site 394008158 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 394008159 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 394008160 Walker A/P-loop; other site 394008161 ATP binding site [chemical binding]; other site 394008162 Q-loop/lid; other site 394008163 ABC transporter signature motif; other site 394008164 Walker B; other site 394008165 D-loop; other site 394008166 H-loop/switch region; other site 394008167 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 394008168 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 394008169 Walker A/P-loop; other site 394008170 ATP binding site [chemical binding]; other site 394008171 Q-loop/lid; other site 394008172 ABC transporter signature motif; other site 394008173 Walker B; other site 394008174 D-loop; other site 394008175 H-loop/switch region; other site 394008176 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 394008177 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 394008178 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 394008179 shikimate binding site; other site 394008180 NAD(P) binding site [chemical binding]; other site 394008181 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 394008182 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 394008183 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 394008184 dimer interface [polypeptide binding]; other site 394008185 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 394008186 active site 394008187 Fe binding site [ion binding]; other site 394008188 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394008189 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394008190 active site 394008191 phosphorylation site [posttranslational modification] 394008192 intermolecular recognition site; other site 394008193 dimerization interface [polypeptide binding]; other site 394008194 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394008195 dimerization interface [polypeptide binding]; other site 394008196 DNA binding residues [nucleotide binding] 394008197 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 394008198 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 394008199 Na binding site [ion binding]; other site 394008200 PAS fold; Region: PAS_7; pfam12860 394008201 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394008202 putative active site [active] 394008203 heme pocket [chemical binding]; other site 394008204 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394008205 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394008206 dimer interface [polypeptide binding]; other site 394008207 phosphorylation site [posttranslational modification] 394008208 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394008209 ATP binding site [chemical binding]; other site 394008210 Mg2+ binding site [ion binding]; other site 394008211 G-X-G motif; other site 394008212 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 394008213 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394008214 active site 394008215 phosphorylation site [posttranslational modification] 394008216 intermolecular recognition site; other site 394008217 dimerization interface [polypeptide binding]; other site 394008218 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 394008219 Na binding site [ion binding]; other site 394008220 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 394008221 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 394008222 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 394008223 type III secretion protein, YscU/HrpY family; Region: FlhB_rel_III; TIGR01404 394008224 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 394008225 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 394008226 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 394008227 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 394008228 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 394008229 FHIPEP family; Region: FHIPEP; pfam00771 394008230 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cl00062 394008231 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 394008232 phosphopeptide binding site; other site 394008233 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 394008234 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 394008235 type III secretion system protein; Reviewed; Region: PRK06937 394008236 Flagellar assembly protein FliH; Region: FliH; pfam02108 394008237 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 394008238 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 394008239 Walker A motif; other site 394008240 ATP binding site [chemical binding]; other site 394008241 Walker B motif; other site 394008242 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 394008243 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 394008244 type III secretion system protein YscR; Provisional; Region: PRK12797 394008245 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 394008246 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 394008247 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 394008248 L-asparagine permease; Provisional; Region: PRK15049 394008249 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 394008250 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 394008251 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394008252 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394008253 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394008254 SPW repeat; Region: SPW; pfam03779 394008255 SPW repeat; Region: SPW; pfam03779 394008256 NGR_b23080; traJ control, FinP, RF00107 394008257 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394008258 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394008259 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394008260 Trehalose utilization protein [Carbohydrate transport and metabolism]; Region: ThuA; COG4813 394008261 conserved cys residue [active] 394008262 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 394008263 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394008264 Walker A/P-loop; other site 394008265 ATP binding site [chemical binding]; other site 394008266 Q-loop/lid; other site 394008267 ABC transporter signature motif; other site 394008268 Walker B; other site 394008269 D-loop; other site 394008270 H-loop/switch region; other site 394008271 TOBE domain; Region: TOBE_2; pfam08402 394008272 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394008273 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394008274 dimer interface [polypeptide binding]; other site 394008275 conserved gate region; other site 394008276 putative PBP binding loops; other site 394008277 ABC-ATPase subunit interface; other site 394008278 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394008279 dimer interface [polypeptide binding]; other site 394008280 conserved gate region; other site 394008281 putative PBP binding loops; other site 394008282 ABC-ATPase subunit interface; other site 394008283 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394008284 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 394008285 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394008286 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394008287 DNA binding site [nucleotide binding] 394008288 domain linker motif; other site 394008289 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 394008290 ligand binding site [chemical binding]; other site 394008291 Predicted flavoproteins [General function prediction only]; Region: COG2081 394008292 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394008293 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 394008294 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394008295 putative substrate translocation pore; other site 394008296 Dodecin; Region: Dodecin; pfam07311 394008297 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 394008298 peptidase T; Region: peptidase-T; TIGR01882 394008299 metal binding site [ion binding]; metal-binding site 394008300 dimer interface [polypeptide binding]; other site 394008301 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 394008302 Uncharacterized conserved protein (DUF2277); Region: DUF2277; pfam10041 394008303 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 394008304 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 394008305 putative active site [active] 394008306 Zn binding site [ion binding]; other site 394008307 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 394008308 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 394008309 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 394008310 active site 394008311 ectoine utilization protein EutC; Validated; Region: PRK08291 394008312 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 394008313 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 394008314 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 394008315 tetramer interface [polypeptide binding]; other site 394008316 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394008317 catalytic residue [active] 394008318 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 394008319 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394008320 dimer interface [polypeptide binding]; other site 394008321 conserved gate region; other site 394008322 putative PBP binding loops; other site 394008323 ABC-ATPase subunit interface; other site 394008324 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 394008325 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394008326 dimer interface [polypeptide binding]; other site 394008327 conserved gate region; other site 394008328 putative PBP binding loops; other site 394008329 ABC-ATPase subunit interface; other site 394008330 ectoine/hydroxyectoine ABC transporter solute-binding protein; Region: ectoine_ehuB; TIGR02995 394008331 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394008332 substrate binding pocket [chemical binding]; other site 394008333 membrane-bound complex binding site; other site 394008334 hinge residues; other site 394008335 ectoine/hydroxyectoine ABC transporter, ATP-binding protein; Region: ectoine_ehuA; TIGR03005 394008336 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394008337 Walker A/P-loop; other site 394008338 ATP binding site [chemical binding]; other site 394008339 Q-loop/lid; other site 394008340 ABC transporter signature motif; other site 394008341 Walker B; other site 394008342 D-loop; other site 394008343 H-loop/switch region; other site 394008344 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 394008345 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394008346 DNA-binding site [nucleotide binding]; DNA binding site 394008347 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394008348 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394008349 homodimer interface [polypeptide binding]; other site 394008350 catalytic residue [active] 394008351 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394008352 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394008353 putative DNA binding site [nucleotide binding]; other site 394008354 putative Zn2+ binding site [ion binding]; other site 394008355 AsnC family; Region: AsnC_trans_reg; pfam01037 394008356 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 394008357 succinic semialdehyde dehydrogenase; Region: PLN02278 394008358 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 394008359 tetramerization interface [polypeptide binding]; other site 394008360 NAD(P) binding site [chemical binding]; other site 394008361 catalytic residues [active] 394008362 hypothetical protein; Provisional; Region: PRK07482 394008363 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394008364 inhibitor-cofactor binding pocket; inhibition site 394008365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394008366 catalytic residue [active] 394008367 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 394008368 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 394008369 putative NAD(P) binding site [chemical binding]; other site 394008370 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 394008371 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394008372 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394008373 dimerization interface [polypeptide binding]; other site 394008374 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 394008375 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 394008376 [2Fe-2S] cluster binding site [ion binding]; other site 394008377 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 394008378 putative alpha subunit interface [polypeptide binding]; other site 394008379 putative active site [active] 394008380 putative substrate binding site [chemical binding]; other site 394008381 Fe binding site [ion binding]; other site 394008382 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 394008383 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 394008384 FAD binding pocket [chemical binding]; other site 394008385 FAD binding motif [chemical binding]; other site 394008386 phosphate binding motif [ion binding]; other site 394008387 beta-alpha-beta structure motif; other site 394008388 NAD binding pocket [chemical binding]; other site 394008389 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 394008390 catalytic loop [active] 394008391 iron binding site [ion binding]; other site 394008392 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 394008393 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 394008394 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 394008395 active site 394008396 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 394008397 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 394008398 conserved cys residue [active] 394008399 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394008400 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394008401 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 394008402 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 394008403 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 394008404 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 394008405 phosphate binding site [ion binding]; other site 394008406 Trimethylamine methyltransferase (MTTB); Region: MTTB; pfam06253 394008407 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 394008408 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394008409 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 394008410 dimerization interface [polypeptide binding]; other site 394008411 substrate binding pocket [chemical binding]; other site 394008412 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394008413 DNA binding site [nucleotide binding] 394008414 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 394008415 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 394008416 putative ligand binding site [chemical binding]; other site 394008417 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 394008418 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 394008419 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 394008420 [2Fe-2S] cluster binding site [ion binding]; other site 394008421 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 394008422 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 394008423 putative ligand binding site [chemical binding]; other site 394008424 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 394008425 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394008426 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 394008427 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 394008428 substrate binding site [chemical binding]; other site 394008429 catalytic Zn binding site [ion binding]; other site 394008430 NAD binding site [chemical binding]; other site 394008431 structural Zn binding site [ion binding]; other site 394008432 dimer interface [polypeptide binding]; other site 394008433 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 394008434 dimer interface [polypeptide binding]; other site 394008435 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 394008436 putative active site [active] 394008437 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 394008438 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 394008439 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 394008440 elongation factor G; Reviewed; Region: PRK12740 394008441 G1 box; other site 394008442 putative GEF interaction site [polypeptide binding]; other site 394008443 GTP/Mg2+ binding site [chemical binding]; other site 394008444 Switch I region; other site 394008445 G2 box; other site 394008446 G3 box; other site 394008447 Switch II region; other site 394008448 G4 box; other site 394008449 G5 box; other site 394008450 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 394008451 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 394008452 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 394008453 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394008454 DNA-binding site [nucleotide binding]; DNA binding site 394008455 UTRA domain; Region: UTRA; pfam07702 394008456 DnaA N-terminal domain; Region: DnaA_N; pfam11638 394008457 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 394008458 Bacterial dnaA protein; Region: Bac_DnaA; pfam00308 394008459 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 394008460 DnaA box-binding interface [nucleotide binding]; other site 394008461 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 394008462 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 394008463 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394008464 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 394008465 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 394008466 putative hydrophobic ligand binding site [chemical binding]; other site 394008467 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 394008468 SnoaL-like domain; Region: SnoaL_3; pfam13474 394008469 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 394008470 putative dimer interface [polypeptide binding]; other site 394008471 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394008472 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394008473 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 394008474 putative C-terminal domain interface [polypeptide binding]; other site 394008475 putative GSH binding site (G-site) [chemical binding]; other site 394008476 putative dimer interface [polypeptide binding]; other site 394008477 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 394008478 N-terminal domain interface [polypeptide binding]; other site 394008479 dimer interface [polypeptide binding]; other site 394008480 substrate binding pocket (H-site) [chemical binding]; other site 394008481 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 394008482 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394008483 FeS/SAM binding site; other site 394008484 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 394008485 active site 394008486 dimerization interface [polypeptide binding]; other site 394008487 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 394008488 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394008489 active site 394008490 ribonuclease PH; Reviewed; Region: rph; PRK00173 394008491 Ribonuclease PH; Region: RNase_PH_bact; cd11362 394008492 hexamer interface [polypeptide binding]; other site 394008493 active site 394008494 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 394008495 heat shock protein GrpE; Provisional; Region: PRK14141 394008496 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 394008497 dimer interface [polypeptide binding]; other site 394008498 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 394008499 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 394008500 FAD binding domain; Region: FAD_binding_4; pfam01565 394008501 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 394008502 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394008503 classical (c) SDRs; Region: SDR_c; cd05233 394008504 NAD(P) binding site [chemical binding]; other site 394008505 active site 394008506 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 394008507 active site 394008508 phosphorylation site [posttranslational modification] 394008509 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 394008510 30S subunit binding site; other site 394008511 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 394008512 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 394008513 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 394008514 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 394008515 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 394008516 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 394008517 Walker A/P-loop; other site 394008518 ATP binding site [chemical binding]; other site 394008519 Q-loop/lid; other site 394008520 ABC transporter signature motif; other site 394008521 Walker B; other site 394008522 D-loop; other site 394008523 H-loop/switch region; other site 394008524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 394008525 OstA-like protein; Region: OstA; pfam03968 394008526 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 394008527 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 394008528 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 394008529 tandem repeat interface [polypeptide binding]; other site 394008530 oligomer interface [polypeptide binding]; other site 394008531 active site residues [active] 394008532 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 394008533 IHF dimer interface [polypeptide binding]; other site 394008534 IHF - DNA interface [nucleotide binding]; other site 394008535 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 394008536 putative hydrophobic ligand binding site [chemical binding]; other site 394008537 Methyltransferase domain; Region: Methyltransf_31; pfam13847 394008538 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394008539 S-adenosylmethionine binding site [chemical binding]; other site 394008540 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 394008541 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 394008542 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 394008543 lipoprotein signal peptidase; Provisional; Region: PRK14795 394008544 lipoprotein signal peptidase; Provisional; Region: PRK14787 394008545 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394008546 dimer interface [polypeptide binding]; other site 394008547 phosphorylation site [posttranslational modification] 394008548 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394008549 ATP binding site [chemical binding]; other site 394008550 Mg2+ binding site [ion binding]; other site 394008551 G-X-G motif; other site 394008552 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 394008553 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394008554 active site 394008555 phosphorylation site [posttranslational modification] 394008556 intermolecular recognition site; other site 394008557 dimerization interface [polypeptide binding]; other site 394008558 Putative hemolysin [General function prediction only]; Region: COG3176 394008559 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 394008560 Malic enzyme, N-terminal domain; Region: malic; pfam00390 394008561 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 394008562 putative NAD(P) binding site [chemical binding]; other site 394008563 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 394008564 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 394008565 MutS domain I; Region: MutS_I; pfam01624 394008566 MutS domain II; Region: MutS_II; pfam05188 394008567 MutS domain III; Region: MutS_III; pfam05192 394008568 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 394008569 Walker A/P-loop; other site 394008570 ATP binding site [chemical binding]; other site 394008571 Q-loop/lid; other site 394008572 ABC transporter signature motif; other site 394008573 Walker B; other site 394008574 D-loop; other site 394008575 H-loop/switch region; other site 394008576 PII uridylyl-transferase; Provisional; Region: PRK05092 394008577 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 394008578 metal binding triad; other site 394008579 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 394008580 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 394008581 Zn2+ binding site [ion binding]; other site 394008582 Mg2+ binding site [ion binding]; other site 394008583 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 394008584 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 394008585 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 394008586 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 394008587 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394008588 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 394008589 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 394008590 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 394008591 active site 394008592 HIGH motif; other site 394008593 dimer interface [polypeptide binding]; other site 394008594 KMSKS motif; other site 394008595 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 394008596 Ligand Binding Site [chemical binding]; other site 394008597 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 394008598 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 394008599 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 394008600 Glycoprotease family; Region: Peptidase_M22; pfam00814 394008601 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 394008602 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394008603 Coenzyme A binding pocket [chemical binding]; other site 394008604 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 394008605 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 394008606 putative acyl-acceptor binding pocket; other site 394008607 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 394008608 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 394008609 TRAM domain; Region: TRAM; pfam01938 394008610 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 394008611 PhoH-like protein; Region: PhoH; pfam02562 394008612 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 394008613 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 394008614 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 394008615 Transporter associated domain; Region: CorC_HlyC; smart01091 394008616 Uncharacterized conserved protein [Function unknown]; Region: COG1432 394008617 LabA_like proteins; Region: LabA; cd10911 394008618 putative metal binding site [ion binding]; other site 394008619 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 394008620 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 394008621 putative active site [active] 394008622 catalytic triad [active] 394008623 putative dimer interface [polypeptide binding]; other site 394008624 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394008625 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394008626 non-specific DNA binding site [nucleotide binding]; other site 394008627 salt bridge; other site 394008628 sequence-specific DNA binding site [nucleotide binding]; other site 394008629 S-adenosylmethionine synthetase; Validated; Region: PRK05250 394008630 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 394008631 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 394008632 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 394008633 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394008634 S-adenosylmethionine binding site [chemical binding]; other site 394008635 Uncharacterized small protein [Function unknown]; Region: COG5568 394008636 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 394008637 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 394008638 putative dimer interface [polypeptide binding]; other site 394008639 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 394008640 active site 394008641 tetramer interface [polypeptide binding]; other site 394008642 Cache domain; Region: Cache_1; pfam02743 394008643 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 394008644 dimerization interface [polypeptide binding]; other site 394008645 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394008646 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394008647 dimer interface [polypeptide binding]; other site 394008648 putative CheW interface [polypeptide binding]; other site 394008649 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 394008650 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 394008651 substrate binding site [chemical binding]; other site 394008652 dimer interface [polypeptide binding]; other site 394008653 ATP binding site [chemical binding]; other site 394008654 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 394008655 RmuC family; Region: RmuC; pfam02646 394008656 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 394008657 Predicted flavoprotein [General function prediction only]; Region: COG0431 394008658 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 394008659 active site 394008660 catalytic residues [active] 394008661 metal binding site [ion binding]; metal-binding site 394008662 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 394008663 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 394008664 putative active site [active] 394008665 substrate binding site [chemical binding]; other site 394008666 putative cosubstrate binding site; other site 394008667 catalytic site [active] 394008668 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 394008669 substrate binding site [chemical binding]; other site 394008670 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 394008671 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 394008672 dimerization interface 3.5A [polypeptide binding]; other site 394008673 active site 394008674 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 394008675 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 394008676 metal binding site [ion binding]; metal-binding site 394008677 dimer interface [polypeptide binding]; other site 394008678 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 394008679 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 394008680 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 394008681 HlyD family secretion protein; Region: HlyD_3; pfam13437 394008682 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 394008683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394008684 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394008685 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 394008686 putative effector binding pocket; other site 394008687 putative dimerization interface [polypeptide binding]; other site 394008688 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 394008689 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 394008690 ATP binding site [chemical binding]; other site 394008691 Mg++ binding site [ion binding]; other site 394008692 motif III; other site 394008693 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394008694 nucleotide binding region [chemical binding]; other site 394008695 ATP-binding site [chemical binding]; other site 394008696 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 394008697 RNA binding site [nucleotide binding]; other site 394008698 Predicted membrane protein [Function unknown]; Region: COG3152 394008699 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 394008700 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 394008701 trimer interface [polypeptide binding]; other site 394008702 active site 394008703 substrate binding site [chemical binding]; other site 394008704 CoA binding site [chemical binding]; other site 394008705 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 394008706 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 394008707 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 394008708 motif II; other site 394008709 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 394008710 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 394008711 tetramer interface [polypeptide binding]; other site 394008712 active site 394008713 Mg2+/Mn2+ binding site [ion binding]; other site 394008714 Helix-turn-helix domain; Region: HTH_28; pfam13518 394008715 Winged helix-turn helix; Region: HTH_29; pfam13551 394008716 Homeodomain-like domain; Region: HTH_32; pfam13565 394008717 Integrase core domain; Region: rve; pfam00665 394008718 Integrase core domain; Region: rve_3; pfam13683 394008719 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 394008720 homohexameric interface [polypeptide binding]; other site 394008721 feedback inhibition sensing region; other site 394008722 carbamate kinase; Reviewed; Region: PRK12686 394008723 nucleotide binding site [chemical binding]; other site 394008724 N-acetyl-L-glutamate binding site [chemical binding]; other site 394008725 RNA polymerase sigma factor; Provisional; Region: PRK12514 394008726 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394008727 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 394008728 DNA binding residues [nucleotide binding] 394008729 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 394008730 Anti-sigma-K factor rskA; Region: RskA; pfam10099 394008731 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 394008732 Fasciclin domain; Region: Fasciclin; pfam02469 394008733 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 394008734 SelR domain; Region: SelR; pfam01641 394008735 Predicted membrane protein [Function unknown]; Region: COG4803 394008736 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 394008737 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 394008738 G1 box; other site 394008739 GTP/Mg2+ binding site [chemical binding]; other site 394008740 Switch I region; other site 394008741 G2 box; other site 394008742 G3 box; other site 394008743 Switch II region; other site 394008744 G4 box; other site 394008745 G5 box; other site 394008746 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 394008747 membrane protein insertase; Provisional; Region: PRK01318 394008748 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 394008749 ribonuclease P; Reviewed; Region: rnpA; PRK01313 394008750 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 394008751 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 394008752 dimerization interface [polypeptide binding]; other site 394008753 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394008754 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394008755 dimer interface [polypeptide binding]; other site 394008756 putative CheW interface [polypeptide binding]; other site 394008757 Uncharacterized conserved protein [Function unknown]; Region: COG0398 394008758 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 394008759 mercuric reductase; Validated; Region: PRK06370 394008760 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 394008761 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394008762 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 394008763 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394008764 HAMP domain; Region: HAMP; pfam00672 394008765 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394008766 ATP binding site [chemical binding]; other site 394008767 Mg2+ binding site [ion binding]; other site 394008768 G-X-G motif; other site 394008769 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 394008770 putative deacylase active site [active] 394008771 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 394008772 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394008773 DNA binding residues [nucleotide binding] 394008774 dimerization interface [polypeptide binding]; other site 394008775 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 394008776 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 394008777 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394008778 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394008779 active site 394008780 catalytic tetrad [active] 394008781 Uncharacterized conserved protein [Function unknown]; Region: COG1739 394008782 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 394008783 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 394008784 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 394008785 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 394008786 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 394008787 Glutamate binding site [chemical binding]; other site 394008788 NAD binding site [chemical binding]; other site 394008789 catalytic residues [active] 394008790 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 394008791 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 394008792 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 394008793 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 394008794 active site 394008795 metal binding site [ion binding]; metal-binding site 394008796 hexamer interface [polypeptide binding]; other site 394008797 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 394008798 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 394008799 FecR protein; Region: FecR; pfam04773 394008800 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 394008801 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394008802 cyclase homology domain; Region: CHD; cd07302 394008803 nucleotidyl binding site; other site 394008804 metal binding site [ion binding]; metal-binding site 394008805 dimer interface [polypeptide binding]; other site 394008806 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 394008807 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 394008808 ligand binding site [chemical binding]; other site 394008809 flexible hinge region; other site 394008810 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 394008811 Predicted membrane protein [Function unknown]; Region: COG2259 394008812 Transposase IS200 like; Region: Y1_Tnp; pfam01797 394008813 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 394008814 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 394008815 non-specific DNA interactions [nucleotide binding]; other site 394008816 DNA binding site [nucleotide binding] 394008817 sequence specific DNA binding site [nucleotide binding]; other site 394008818 putative cAMP binding site [chemical binding]; other site 394008819 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 394008820 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 394008821 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 394008822 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 394008823 ligand binding site [chemical binding]; other site 394008824 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394008825 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394008826 TM-ABC transporter signature motif; other site 394008827 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 394008828 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394008829 Walker A/P-loop; other site 394008830 ATP binding site [chemical binding]; other site 394008831 Q-loop/lid; other site 394008832 ABC transporter signature motif; other site 394008833 Walker B; other site 394008834 D-loop; other site 394008835 H-loop/switch region; other site 394008836 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 394008837 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 394008838 active site 394008839 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 394008840 active site 394008841 substrate binding pocket [chemical binding]; other site 394008842 dimer interface [polypeptide binding]; other site 394008843 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 394008844 active site 394008845 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 394008846 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 394008847 putative substrate binding site [chemical binding]; other site 394008848 putative ATP binding site [chemical binding]; other site 394008849 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 394008850 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 394008851 active site 394008852 dimer interface [polypeptide binding]; other site 394008853 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 394008854 dimer interface [polypeptide binding]; other site 394008855 active site 394008856 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 394008857 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 394008858 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 394008859 acyl-activating enzyme (AAE) consensus motif; other site 394008860 putative AMP binding site [chemical binding]; other site 394008861 putative active site [active] 394008862 putative CoA binding site [chemical binding]; other site 394008863 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 394008864 Domain of unknown function DUF20; Region: UPF0118; pfam01594 394008865 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 394008866 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 394008867 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 394008868 Ligand Binding Site [chemical binding]; other site 394008869 GAF domain; Region: GAF_3; pfam13492 394008870 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394008871 dimer interface [polypeptide binding]; other site 394008872 phosphorylation site [posttranslational modification] 394008873 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394008874 ATP binding site [chemical binding]; other site 394008875 Mg2+ binding site [ion binding]; other site 394008876 G-X-G motif; other site 394008877 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 394008878 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 394008879 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 394008880 putative acyl-acceptor binding pocket; other site 394008881 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 394008882 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 394008883 Domain of unknown function (DUF4411); Region: DUF4411; pfam14367 394008884 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394008885 non-specific DNA binding site [nucleotide binding]; other site 394008886 salt bridge; other site 394008887 sequence-specific DNA binding site [nucleotide binding]; other site 394008888 Domain of unknown function (DUF955); Region: DUF955; cl01076 394008889 integrase; Provisional; Region: PRK09692 394008890 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 394008891 active site 394008892 Int/Topo IB signature motif; other site 394008893 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 394008894 type I restriction enzyme EcoKI subunit R; Provisional; Region: hsdR; PRK11448 394008895 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 394008896 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 394008897 ATP binding site [chemical binding]; other site 394008898 putative Mg++ binding site [ion binding]; other site 394008899 nucleotide binding region [chemical binding]; other site 394008900 helicase superfamily c-terminal domain; Region: HELICc; smart00490 394008901 ATP-binding site [chemical binding]; other site 394008902 HsdM N-terminal domain; Region: HsdM_N; pfam12161 394008903 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 394008904 Methyltransferase domain; Region: Methyltransf_26; pfam13659 394008905 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 394008906 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 394008907 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 394008908 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394008909 AAA domain; Region: AAA_23; pfam13476 394008910 Walker A/P-loop; other site 394008911 ATP binding site [chemical binding]; other site 394008912 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394008913 Walker B; other site 394008914 D-loop; other site 394008915 H-loop/switch region; other site 394008916 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 394008917 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 394008918 FMN binding site [chemical binding]; other site 394008919 substrate binding site [chemical binding]; other site 394008920 putative catalytic residue [active] 394008921 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 394008922 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 394008923 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394008924 dimer interface [polypeptide binding]; other site 394008925 phosphorylation site [posttranslational modification] 394008926 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394008927 ATP binding site [chemical binding]; other site 394008928 Mg2+ binding site [ion binding]; other site 394008929 G-X-G motif; other site 394008930 PBP superfamily domain; Region: PBP_like_2; pfam12849 394008931 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 394008932 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 394008933 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394008934 dimer interface [polypeptide binding]; other site 394008935 conserved gate region; other site 394008936 putative PBP binding loops; other site 394008937 ABC-ATPase subunit interface; other site 394008938 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 394008939 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 394008940 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394008941 dimer interface [polypeptide binding]; other site 394008942 conserved gate region; other site 394008943 putative PBP binding loops; other site 394008944 ABC-ATPase subunit interface; other site 394008945 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 394008946 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 394008947 Walker A/P-loop; other site 394008948 ATP binding site [chemical binding]; other site 394008949 Q-loop/lid; other site 394008950 ABC transporter signature motif; other site 394008951 Walker B; other site 394008952 D-loop; other site 394008953 H-loop/switch region; other site 394008954 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 394008955 PhoU domain; Region: PhoU; pfam01895 394008956 PhoU domain; Region: PhoU; pfam01895 394008957 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 394008958 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394008959 active site 394008960 phosphorylation site [posttranslational modification] 394008961 intermolecular recognition site; other site 394008962 dimerization interface [polypeptide binding]; other site 394008963 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394008964 DNA binding site [nucleotide binding] 394008965 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 394008966 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 394008967 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394008968 inhibitor-cofactor binding pocket; inhibition site 394008969 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394008970 catalytic residue [active] 394008971 ornithine carbamoyltransferase; Provisional; Region: PRK00779 394008972 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 394008973 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 394008974 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 394008975 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 394008976 dimerization interface [polypeptide binding]; other site 394008977 domain crossover interface; other site 394008978 redox-dependent activation switch; other site 394008979 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 394008980 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 394008981 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 394008982 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 394008983 homodimer interface [polypeptide binding]; other site 394008984 substrate-cofactor binding pocket; other site 394008985 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394008986 catalytic residue [active] 394008987 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 394008988 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 394008989 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 394008990 trimer interface [polypeptide binding]; other site 394008991 active site 394008992 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 394008993 trimer interface [polypeptide binding]; other site 394008994 active site 394008995 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394008996 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 394008997 substrate binding pocket [chemical binding]; other site 394008998 membrane-bound complex binding site; other site 394008999 hinge residues; other site 394009000 tellurite resistance protein terB; Region: terB; cd07176 394009001 putative metal binding site [ion binding]; other site 394009002 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 394009003 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 394009004 Predicted transcriptional regulator [Transcription]; Region: COG2932 394009005 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 394009006 Catalytic site [active] 394009007 Predicted transcriptional regulators [Transcription]; Region: COG1733 394009008 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 394009009 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 394009010 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 394009011 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394009012 substrate binding site [chemical binding]; other site 394009013 oxyanion hole (OAH) forming residues; other site 394009014 trimer interface [polypeptide binding]; other site 394009015 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 394009016 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 394009017 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 394009018 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 394009019 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 394009020 dimer interface [polypeptide binding]; other site 394009021 active site 394009022 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 394009023 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 394009024 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 394009025 FAD binding site [chemical binding]; other site 394009026 substrate binding site [chemical binding]; other site 394009027 catalytic residues [active] 394009028 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 394009029 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 394009030 Sel1-like repeats; Region: SEL1; smart00671 394009031 Sel1-like repeats; Region: SEL1; smart00671 394009032 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 394009033 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 394009034 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 394009035 conserved hypothetical protein; Region: alph_Pro_TM; TIGR02186 394009036 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394009037 AsnC family; Region: AsnC_trans_reg; pfam01037 394009038 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 394009039 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 394009040 putative active site [active] 394009041 putative metal binding site [ion binding]; other site 394009042 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 394009043 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 394009044 ATP binding site [chemical binding]; other site 394009045 putative Mg++ binding site [ion binding]; other site 394009046 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394009047 nucleotide binding region [chemical binding]; other site 394009048 ATP-binding site [chemical binding]; other site 394009049 DEAD/H associated; Region: DEAD_assoc; pfam08494 394009050 Uncharacterized conserved protein [Function unknown]; Region: COG1284 394009051 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 394009052 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 394009053 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 394009054 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394009055 S-adenosylmethionine binding site [chemical binding]; other site 394009056 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 394009057 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 394009058 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 394009059 putative efflux protein, MATE family; Region: matE; TIGR00797 394009060 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 394009061 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 394009062 quinone interaction residues [chemical binding]; other site 394009063 active site 394009064 catalytic residues [active] 394009065 FMN binding site [chemical binding]; other site 394009066 substrate binding site [chemical binding]; other site 394009067 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3502 394009068 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394009069 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394009070 active site 394009071 phosphorylation site [posttranslational modification] 394009072 intermolecular recognition site; other site 394009073 dimerization interface [polypeptide binding]; other site 394009074 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394009075 DNA binding residues [nucleotide binding] 394009076 dimerization interface [polypeptide binding]; other site 394009077 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 394009078 Na binding site [ion binding]; other site 394009079 PAS fold; Region: PAS_7; pfam12860 394009080 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394009081 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394009082 dimer interface [polypeptide binding]; other site 394009083 phosphorylation site [posttranslational modification] 394009084 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394009085 ATP binding site [chemical binding]; other site 394009086 Mg2+ binding site [ion binding]; other site 394009087 G-X-G motif; other site 394009088 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 394009089 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394009090 active site 394009091 phosphorylation site [posttranslational modification] 394009092 intermolecular recognition site; other site 394009093 dimerization interface [polypeptide binding]; other site 394009094 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 394009095 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 394009096 aspartate aminotransferase; Provisional; Region: PRK06108 394009097 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394009098 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394009099 homodimer interface [polypeptide binding]; other site 394009100 catalytic residue [active] 394009101 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 394009102 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 394009103 NAD binding site [chemical binding]; other site 394009104 homodimer interface [polypeptide binding]; other site 394009105 active site 394009106 substrate binding site [chemical binding]; other site 394009107 Chorismate mutase type II; Region: CM_2; cl00693 394009108 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 394009109 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 394009110 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 394009111 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 394009112 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 394009113 metal binding site [ion binding]; metal-binding site 394009114 putative dimer interface [polypeptide binding]; other site 394009115 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394009116 dimer interface [polypeptide binding]; other site 394009117 conserved gate region; other site 394009118 putative PBP binding loops; other site 394009119 ABC-ATPase subunit interface; other site 394009120 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 394009121 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394009122 dimer interface [polypeptide binding]; other site 394009123 conserved gate region; other site 394009124 putative PBP binding loops; other site 394009125 ABC-ATPase subunit interface; other site 394009126 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394009127 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 394009128 substrate binding pocket [chemical binding]; other site 394009129 membrane-bound complex binding site; other site 394009130 hinge residues; other site 394009131 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 394009132 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394009133 Walker A/P-loop; other site 394009134 ATP binding site [chemical binding]; other site 394009135 Q-loop/lid; other site 394009136 ABC transporter signature motif; other site 394009137 Walker B; other site 394009138 D-loop; other site 394009139 H-loop/switch region; other site 394009140 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 394009141 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394009142 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 394009143 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 394009144 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394009145 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394009146 homodimer interface [polypeptide binding]; other site 394009147 catalytic residue [active] 394009148 hypothetical protein; Provisional; Region: PRK07524 394009149 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 394009150 PYR/PP interface [polypeptide binding]; other site 394009151 dimer interface [polypeptide binding]; other site 394009152 TPP binding site [chemical binding]; other site 394009153 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 394009154 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 394009155 TPP-binding site [chemical binding]; other site 394009156 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 394009157 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 394009158 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 394009159 Protein export membrane protein; Region: SecD_SecF; pfam02355 394009160 KpsF/GutQ family protein; Region: kpsF; TIGR00393 394009161 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 394009162 putative active site [active] 394009163 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 394009164 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 394009165 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 394009166 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 394009167 Sulfatase; Region: Sulfatase; cl17466 394009168 3-ketodihydrosphingosine reductase (KDSR) and related proteins, classical (c) SDR; Region: KDSR-like_SDR_c; cd08939 394009169 putative NAD(P) binding site [chemical binding]; other site 394009170 homotetramer interface [polypeptide binding]; other site 394009171 active site 394009172 homodimer interface [polypeptide binding]; other site 394009173 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 394009174 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 394009175 substrate-cofactor binding pocket; other site 394009176 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394009177 catalytic residue [active] 394009178 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 394009179 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 394009180 active site 394009181 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 394009182 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 394009183 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 394009184 Enoylreductase; Region: PKS_ER; smart00829 394009185 NAD(P) binding site [chemical binding]; other site 394009186 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 394009187 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 394009188 NADP binding site [chemical binding]; other site 394009189 active site 394009190 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 394009191 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 394009192 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 394009193 SLBB domain; Region: SLBB; pfam10531 394009194 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 394009195 Isochorismatase family; Region: Isochorismatase; pfam00857 394009196 catalytic triad [active] 394009197 metal binding site [ion binding]; metal-binding site 394009198 conserved cis-peptide bond; other site 394009199 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 394009200 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 394009201 active site 394009202 Transglycosylase; Region: Transgly; pfam00912 394009203 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 394009204 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 394009205 BA14K-like protein; Region: BA14K; pfam07886 394009206 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 394009207 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 394009208 hinge; other site 394009209 active site 394009210 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 394009211 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 394009212 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 394009213 NAD binding site [chemical binding]; other site 394009214 dimerization interface [polypeptide binding]; other site 394009215 product binding site; other site 394009216 substrate binding site [chemical binding]; other site 394009217 zinc binding site [ion binding]; other site 394009218 catalytic residues [active] 394009219 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5328 394009220 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 394009221 Low molecular weight phosphatase family; Region: LMWPc; cd00115 394009222 active site 394009223 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 394009224 rRNA binding site [nucleotide binding]; other site 394009225 predicted 30S ribosome binding site; other site 394009226 Maf-like protein; Region: Maf; pfam02545 394009227 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 394009228 active site 394009229 dimer interface [polypeptide binding]; other site 394009230 zinc-binding protein; Provisional; Region: PRK01343 394009231 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 394009232 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394009233 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394009234 metal binding site [ion binding]; metal-binding site 394009235 active site 394009236 I-site; other site 394009237 Xanthomonas avirulence protein, Avr/PthA; Region: Avirulence; pfam03377 394009238 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 394009239 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394009240 binding surface 394009241 TPR motif; other site 394009242 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cd01635 394009243 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 394009244 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 394009245 UDP-galactopyranose mutase; Region: GLF; pfam03275 394009246 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 394009247 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 394009248 conserved cys residue [active] 394009249 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394009250 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394009251 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 394009252 putative deacylase active site [active] 394009253 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 394009254 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952 394009255 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 394009256 short chain dehydrogenase; Validated; Region: PRK08324 394009257 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 394009258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394009259 NAD(P) binding site [chemical binding]; other site 394009260 active site 394009261 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 394009262 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 394009263 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 394009264 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 394009265 rhamnose ABC transporter, rhamnose-binding protein; Region: RhaS; TIGR02637 394009266 ligand binding site [chemical binding]; other site 394009267 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394009268 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394009269 Walker A/P-loop; other site 394009270 ATP binding site [chemical binding]; other site 394009271 Q-loop/lid; other site 394009272 ABC transporter signature motif; other site 394009273 Walker B; other site 394009274 D-loop; other site 394009275 H-loop/switch region; other site 394009276 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394009277 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394009278 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394009279 TM-ABC transporter signature motif; other site 394009280 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394009281 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394009282 TM-ABC transporter signature motif; other site 394009283 Uncharacterized conserved protein [Function unknown]; Region: COG3254 394009284 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 394009285 Novosphingobium aromaticivorans carbohydrate kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_NaCK_like; cd07772 394009286 N- and C-terminal domain interface [polypeptide binding]; other site 394009287 putative active site [active] 394009288 putative MgATP binding site [chemical binding]; other site 394009289 putative catalytic site [active] 394009290 metal binding site [ion binding]; metal-binding site 394009291 putative carbohydrate binding site [chemical binding]; other site 394009292 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 394009293 heme-binding site [chemical binding]; other site 394009294 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394009295 dimer interface [polypeptide binding]; other site 394009296 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 394009297 putative CheW interface [polypeptide binding]; other site 394009298 STAS domain; Region: STAS_2; pfam13466 394009299 Response regulator receiver domain; Region: Response_reg; pfam00072 394009300 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394009301 active site 394009302 phosphorylation site [posttranslational modification] 394009303 intermolecular recognition site; other site 394009304 dimerization interface [polypeptide binding]; other site 394009305 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 394009306 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 394009307 putative binding surface; other site 394009308 active site 394009309 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 394009310 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394009311 ATP binding site [chemical binding]; other site 394009312 Mg2+ binding site [ion binding]; other site 394009313 G-X-G motif; other site 394009314 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 394009315 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 394009316 putative CheA interaction surface; other site 394009317 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 394009318 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 394009319 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 394009320 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 394009321 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394009322 active site 394009323 phosphorylation site [posttranslational modification] 394009324 intermolecular recognition site; other site 394009325 dimerization interface [polypeptide binding]; other site 394009326 CheB methylesterase; Region: CheB_methylest; pfam01339 394009327 Response regulator receiver domain; Region: Response_reg; pfam00072 394009328 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394009329 active site 394009330 phosphorylation site [posttranslational modification] 394009331 intermolecular recognition site; other site 394009332 dimerization interface [polypeptide binding]; other site 394009333 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13497 394009334 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 394009335 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 394009336 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 394009337 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394009338 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394009339 DNA binding residues [nucleotide binding] 394009340 dimerization interface [polypeptide binding]; other site 394009341 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394009342 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394009343 DNA binding residues [nucleotide binding] 394009344 dimerization interface [polypeptide binding]; other site 394009345 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 394009346 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 394009347 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 394009348 MgtE intracellular N domain; Region: MgtE_N; smart00924 394009349 FliG C-terminal domain; Region: FliG_C; pfam01706 394009350 flagellar motor switch protein FliN; Region: fliN; TIGR02480 394009351 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 394009352 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 394009353 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 394009354 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 394009355 flagellar motor protein MotA; Validated; Region: PRK09110 394009356 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 394009357 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 394009358 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 394009359 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 394009360 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 394009361 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 394009362 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 394009363 Walker A motif; other site 394009364 ATP binding site [chemical binding]; other site 394009365 Walker B motif; other site 394009366 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 394009367 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 394009368 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 394009369 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 394009370 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 394009371 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 394009372 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 394009373 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 394009374 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 394009375 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 394009376 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 394009377 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 394009378 Uncharacterized conserved protein [Function unknown]; Region: COG3334 394009379 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 394009380 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 394009381 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 394009382 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 394009383 flagellin; Reviewed; Region: PRK12687 394009384 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 394009385 flagellin; Reviewed; Region: PRK12687 394009386 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 394009387 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 394009388 flagellin; Reviewed; Region: PRK12687 394009389 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 394009390 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 394009391 flagellin; Reviewed; Region: PRK12687 394009392 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 394009393 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 394009394 flagellar motor protein MotB; Validated; Region: motB; PRK05996 394009395 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 394009396 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 394009397 ligand binding site [chemical binding]; other site 394009398 chemotaxis protein; Reviewed; Region: PRK12798 394009399 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 394009400 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 394009401 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 394009402 N-acetyl-D-glucosamine binding site [chemical binding]; other site 394009403 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394009404 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394009405 DNA binding site [nucleotide binding] 394009406 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 394009407 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 394009408 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 394009409 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 394009410 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 394009411 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 394009412 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 394009413 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 394009414 Flagellar biosynthesis regulator FlaF [Cell motility and secretion]; Region: FlaF; COG5442 394009415 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 394009416 Flagellar biosynthesis regulator FlbT [Cell motility and secretion]; Region: FlbT; COG5443 394009417 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 394009418 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 394009419 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 394009420 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 394009421 FHIPEP family; Region: FHIPEP; pfam00771 394009422 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 394009423 Rod binding protein; Region: Rod-binding; pfam10135 394009424 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 394009425 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 394009426 active site 394009427 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 394009428 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 394009429 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 394009430 homodimer interface [polypeptide binding]; other site 394009431 NADP binding site [chemical binding]; other site 394009432 substrate binding site [chemical binding]; other site 394009433 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394009434 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394009435 DNA binding site [nucleotide binding] 394009436 domain linker motif; other site 394009437 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 394009438 ligand binding site [chemical binding]; other site 394009439 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394009440 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394009441 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394009442 dimer interface [polypeptide binding]; other site 394009443 conserved gate region; other site 394009444 putative PBP binding loops; other site 394009445 ABC-ATPase subunit interface; other site 394009446 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394009447 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394009448 dimer interface [polypeptide binding]; other site 394009449 conserved gate region; other site 394009450 putative PBP binding loops; other site 394009451 ABC-ATPase subunit interface; other site 394009452 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 394009453 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 394009454 active site 394009455 catalytic site [active] 394009456 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 394009457 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394009458 Walker A/P-loop; other site 394009459 ATP binding site [chemical binding]; other site 394009460 Q-loop/lid; other site 394009461 ABC transporter signature motif; other site 394009462 Walker B; other site 394009463 D-loop; other site 394009464 H-loop/switch region; other site 394009465 TOBE domain; Region: TOBE_2; pfam08402 394009466 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 394009467 6-phosphogluconate dehydratase; Region: edd; TIGR01196 394009468 phosphogluconate dehydratase; Validated; Region: PRK09054 394009469 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 394009470 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 394009471 putative active site [active] 394009472 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 394009473 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 394009474 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 394009475 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 394009476 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394009477 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 394009478 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 394009479 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 394009480 Predicted flavoproteins [General function prediction only]; Region: COG2081 394009481 hydroxyglutarate oxidase; Provisional; Region: PRK11728 394009482 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 394009483 dimerization interface [polypeptide binding]; other site 394009484 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394009485 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394009486 dimer interface [polypeptide binding]; other site 394009487 putative CheW interface [polypeptide binding]; other site 394009488 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394009489 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394009490 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394009491 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394009492 non-specific DNA binding site [nucleotide binding]; other site 394009493 salt bridge; other site 394009494 sequence-specific DNA binding site [nucleotide binding]; other site 394009495 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 394009496 Domain of unknown function (DUF955); Region: DUF955; pfam06114 394009497 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 394009498 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 394009499 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 394009500 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 394009501 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 394009502 Walker A/P-loop; other site 394009503 ATP binding site [chemical binding]; other site 394009504 Q-loop/lid; other site 394009505 ABC transporter signature motif; other site 394009506 Walker B; other site 394009507 D-loop; other site 394009508 H-loop/switch region; other site 394009509 TOBE domain; Region: TOBE_2; pfam08402 394009510 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394009511 dimer interface [polypeptide binding]; other site 394009512 conserved gate region; other site 394009513 putative PBP binding loops; other site 394009514 ABC-ATPase subunit interface; other site 394009515 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394009516 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394009517 dimer interface [polypeptide binding]; other site 394009518 conserved gate region; other site 394009519 putative PBP binding loops; other site 394009520 ABC-ATPase subunit interface; other site 394009521 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 394009522 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 394009523 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 394009524 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 394009525 acyl-activating enzyme (AAE) consensus motif; other site 394009526 putative AMP binding site [chemical binding]; other site 394009527 putative active site [active] 394009528 putative CoA binding site [chemical binding]; other site 394009529 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 394009530 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394009531 putative PBP binding loops; other site 394009532 dimer interface [polypeptide binding]; other site 394009533 ABC-ATPase subunit interface; other site 394009534 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394009535 dimer interface [polypeptide binding]; other site 394009536 conserved gate region; other site 394009537 putative PBP binding loops; other site 394009538 ABC-ATPase subunit interface; other site 394009539 PAS domain S-box; Region: sensory_box; TIGR00229 394009540 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394009541 putative active site [active] 394009542 heme pocket [chemical binding]; other site 394009543 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394009544 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394009545 dimer interface [polypeptide binding]; other site 394009546 phosphorylation site [posttranslational modification] 394009547 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394009548 ATP binding site [chemical binding]; other site 394009549 Mg2+ binding site [ion binding]; other site 394009550 G-X-G motif; other site 394009551 Phasin protein; Region: Phasin_2; cl11491 394009552 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394009553 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394009554 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394009555 dimerization interface [polypeptide binding]; other site 394009556 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 394009557 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 394009558 tetrameric interface [polypeptide binding]; other site 394009559 NAD binding site [chemical binding]; other site 394009560 catalytic residues [active] 394009561 Transposase IS200 like; Region: Y1_Tnp; pfam01797 394009562 Predicted membrane protein [Function unknown]; Region: COG4269 394009563 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 394009564 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 394009565 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 394009566 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 394009567 iron-responsive transcriptional regulator; Reviewed; Region: rirA; PRK11920 394009568 Rrf2 family protein; Region: rrf2_super; TIGR00738 394009569 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 394009570 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 394009571 peptide binding site [polypeptide binding]; other site 394009572 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 394009573 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394009574 dimer interface [polypeptide binding]; other site 394009575 conserved gate region; other site 394009576 putative PBP binding loops; other site 394009577 ABC-ATPase subunit interface; other site 394009578 dipeptide transporter; Provisional; Region: PRK10913 394009579 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394009580 dimer interface [polypeptide binding]; other site 394009581 conserved gate region; other site 394009582 putative PBP binding loops; other site 394009583 ABC-ATPase subunit interface; other site 394009584 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 394009585 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394009586 Walker A/P-loop; other site 394009587 ATP binding site [chemical binding]; other site 394009588 Q-loop/lid; other site 394009589 ABC transporter signature motif; other site 394009590 Walker B; other site 394009591 D-loop; other site 394009592 H-loop/switch region; other site 394009593 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394009594 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394009595 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 394009596 Walker A/P-loop; other site 394009597 ATP binding site [chemical binding]; other site 394009598 Q-loop/lid; other site 394009599 ABC transporter signature motif; other site 394009600 Walker B; other site 394009601 D-loop; other site 394009602 H-loop/switch region; other site 394009603 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394009604 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 394009605 homotrimer interaction site [polypeptide binding]; other site 394009606 putative active site [active] 394009607 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 394009608 Domain of unknown function DUF20; Region: UPF0118; pfam01594 394009609 two-component response regulator; Provisional; Region: PRK09191 394009610 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394009611 active site 394009612 phosphorylation site [posttranslational modification] 394009613 intermolecular recognition site; other site 394009614 dimerization interface [polypeptide binding]; other site 394009615 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 394009616 Small integral membrane protein [Function unknown]; Region: COG5487; cl17674 394009617 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394009618 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 394009619 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 394009620 MgtC family; Region: MgtC; pfam02308 394009621 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 394009622 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 394009623 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 394009624 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 394009625 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 394009626 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 394009627 transcription elongation factor regulatory protein; Validated; Region: PRK06342 394009628 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 394009629 exopolyphosphatase; Region: exo_poly_only; TIGR03706 394009630 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 394009631 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 394009632 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394009633 S-adenosylmethionine binding site [chemical binding]; other site 394009634 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 394009635 putative transporter; Provisional; Region: PRK10504 394009636 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394009637 putative substrate translocation pore; other site 394009638 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 394009639 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 394009640 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 394009641 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 394009642 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 394009643 active site 394009644 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5331 394009645 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 394009646 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 394009647 NAD binding site [chemical binding]; other site 394009648 substrate binding site [chemical binding]; other site 394009649 catalytic Zn binding site [ion binding]; other site 394009650 tetramer interface [polypeptide binding]; other site 394009651 structural Zn binding site [ion binding]; other site 394009652 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 394009653 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 394009654 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394009655 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 394009656 dimerization interface [polypeptide binding]; other site 394009657 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394009658 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394009659 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394009660 dimerization interface [polypeptide binding]; other site 394009661 Uncharacterized conserved protein [Function unknown]; Region: COG5403 394009662 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 394009663 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 394009664 Phosphate transporter family; Region: PHO4; pfam01384 394009665 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 394009666 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 394009667 nudix motif; other site 394009668 Transcriptional regulators [Transcription]; Region: FadR; COG2186 394009669 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394009670 DNA-binding site [nucleotide binding]; DNA binding site 394009671 FCD domain; Region: FCD; pfam07729 394009672 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4949 394009673 transcriptional activator TtdR; Provisional; Region: PRK09801 394009674 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 394009675 putative effector binding pocket; other site 394009676 dimerization interface [polypeptide binding]; other site 394009677 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 394009678 FAD binding domain; Region: FAD_binding_4; pfam01565 394009679 FAD binding domain; Region: FAD_binding_4; pfam01565 394009680 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 394009681 Predicted membrane protein [Function unknown]; Region: COG3671 394009682 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 394009683 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 394009684 Cysteine-rich domain; Region: CCG; pfam02754 394009685 Cysteine-rich domain; Region: CCG; pfam02754 394009686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 394009687 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 394009688 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 394009689 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 394009690 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 394009691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3544 394009692 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 394009693 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 394009694 dimer interface [polypeptide binding]; other site 394009695 motif 1; other site 394009696 active site 394009697 motif 2; other site 394009698 motif 3; other site 394009699 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 394009700 anticodon binding site; other site 394009701 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 394009702 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 394009703 dimer interface [polypeptide binding]; other site 394009704 motif 1; other site 394009705 active site 394009706 motif 2; other site 394009707 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 394009708 motif 3; other site 394009709 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 394009710 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 394009711 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394009712 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 394009713 C-terminal domain interface [polypeptide binding]; other site 394009714 GSH binding site (G-site) [chemical binding]; other site 394009715 dimer interface [polypeptide binding]; other site 394009716 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 394009717 dimer interface [polypeptide binding]; other site 394009718 N-terminal domain interface [polypeptide binding]; other site 394009719 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 394009720 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 394009721 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394009722 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 394009723 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 394009724 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394009725 PAS domain; Region: PAS_9; pfam13426 394009726 putative active site [active] 394009727 heme pocket [chemical binding]; other site 394009728 PAS fold; Region: PAS_7; pfam12860 394009729 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394009730 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394009731 metal binding site [ion binding]; metal-binding site 394009732 active site 394009733 I-site; other site 394009734 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394009735 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 394009736 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 394009737 ring oligomerisation interface [polypeptide binding]; other site 394009738 ATP/Mg binding site [chemical binding]; other site 394009739 stacking interactions; other site 394009740 hinge regions; other site 394009741 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 394009742 oligomerisation interface [polypeptide binding]; other site 394009743 mobile loop; other site 394009744 roof hairpin; other site 394009745 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 394009746 active site residue [active] 394009747 Uncharacterized conserved protein [Function unknown]; Region: COG4275 394009748 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 394009749 Chromate transporter; Region: Chromate_transp; pfam02417 394009750 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 394009751 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 394009752 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 394009753 FAD synthase [Coenzyme metabolism]; Region: RibF; COG0196 394009754 FAD synthetase; Region: FAD_syn; pfam06574 394009755 active site 394009756 HIGH motif; other site 394009757 nucleotide binding site [chemical binding]; other site 394009758 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 394009759 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 394009760 active site 394009761 HIGH motif; other site 394009762 nucleotide binding site [chemical binding]; other site 394009763 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 394009764 active site 394009765 KMSKS motif; other site 394009766 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 394009767 tRNA binding surface [nucleotide binding]; other site 394009768 anticodon binding site; other site 394009769 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394009770 Coenzyme A binding pocket [chemical binding]; other site 394009771 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 394009772 nucleoside/Zn binding site; other site 394009773 dimer interface [polypeptide binding]; other site 394009774 catalytic motif [active] 394009775 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 394009776 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 394009777 RNA binding surface [nucleotide binding]; other site 394009778 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 394009779 active site 394009780 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 394009781 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394009782 S-adenosylmethionine binding site [chemical binding]; other site 394009783 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 394009784 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 394009785 active site 394009786 nucleophile elbow; other site 394009787 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 394009788 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 394009789 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 394009790 TrkA-N domain; Region: TrkA_N; pfam02254 394009791 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 394009792 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 394009793 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 394009794 active site 394009795 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 394009796 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 394009797 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 394009798 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 394009799 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 394009800 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 394009801 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394009802 motif II; other site 394009803 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 394009804 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 394009805 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 394009806 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 394009807 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394009808 ATP binding site [chemical binding]; other site 394009809 Mg2+ binding site [ion binding]; other site 394009810 G-X-G motif; other site 394009811 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 394009812 ATP binding site [chemical binding]; other site 394009813 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 394009814 PAS fold; Region: PAS_4; pfam08448 394009815 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394009816 putative active site [active] 394009817 heme pocket [chemical binding]; other site 394009818 Response regulator receiver domain; Region: Response_reg; pfam00072 394009819 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394009820 active site 394009821 phosphorylation site [posttranslational modification] 394009822 intermolecular recognition site; other site 394009823 dimerization interface [polypeptide binding]; other site 394009824 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394009825 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394009826 metal binding site [ion binding]; metal-binding site 394009827 active site 394009828 I-site; other site 394009829 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394009830 PRC-barrel domain; Region: PRC; pfam05239 394009831 dihydroxy-acid dehydratase; Validated; Region: PRK06131 394009832 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 394009833 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 394009834 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 394009835 active site 394009836 intersubunit interface [polypeptide binding]; other site 394009837 catalytic residue [active] 394009838 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 394009839 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 394009840 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 394009841 classical (c) SDRs; Region: SDR_c; cd05233 394009842 NAD(P) binding site [chemical binding]; other site 394009843 active site 394009844 Transcriptional regulator [Transcription]; Region: IclR; COG1414 394009845 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 394009846 Bacterial transcriptional regulator; Region: IclR; pfam01614 394009847 transcriptional regulator TraR; Provisional; Region: PRK13870 394009848 Autoinducer binding domain; Region: Autoind_bind; pfam03472 394009849 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394009850 DNA binding residues [nucleotide binding] 394009851 dimerization interface [polypeptide binding]; other site 394009852 Autoinducer binding domain; Region: Autoind_bind; pfam03472 394009853 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394009854 DNA binding residues [nucleotide binding] 394009855 dimerization interface [polypeptide binding]; other site 394009856 Domain of unknown function DUF59; Region: DUF59; pfam01883 394009857 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 394009858 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 394009859 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 394009860 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 394009861 Cl binding site [ion binding]; other site 394009862 oligomer interface [polypeptide binding]; other site 394009863 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 394009864 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 394009865 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 394009866 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 394009867 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 394009868 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 394009869 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 394009870 F0F1 ATP synthase subunit B'; Validated; Region: PRK09174 394009871 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 394009872 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 394009873 F0F1 ATP synthase subunit B; Provisional; Region: PRK14475 394009874 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 394009875 putative C-terminal domain interface [polypeptide binding]; other site 394009876 putative GSH binding site (G-site) [chemical binding]; other site 394009877 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394009878 putative dimer interface [polypeptide binding]; other site 394009879 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 394009880 N-terminal domain interface [polypeptide binding]; other site 394009881 putative substrate binding pocket (H-site) [chemical binding]; other site 394009882 dimer interface [polypeptide binding]; other site 394009883 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 394009884 RNA/DNA hybrid binding site [nucleotide binding]; other site 394009885 active site 394009886 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 394009887 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394009888 FeS/SAM binding site; other site 394009889 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 394009890 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 394009891 active site 394009892 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 394009893 MPT binding site; other site 394009894 trimer interface [polypeptide binding]; other site 394009895 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 394009896 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 394009897 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 394009898 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394009899 binding surface 394009900 TPR motif; other site 394009901 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394009902 binding surface 394009903 TPR motif; other site 394009904 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394009905 binding surface 394009906 TPR motif; other site 394009907 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 394009908 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 394009909 substrate binding pocket [chemical binding]; other site 394009910 chain length determination region; other site 394009911 substrate-Mg2+ binding site; other site 394009912 catalytic residues [active] 394009913 aspartate-rich region 1; other site 394009914 active site lid residues [active] 394009915 aspartate-rich region 2; other site 394009916 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 394009917 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 394009918 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394009919 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 394009920 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 394009921 tandem repeat interface [polypeptide binding]; other site 394009922 oligomer interface [polypeptide binding]; other site 394009923 active site residues [active] 394009924 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 394009925 dimer interface [polypeptide binding]; other site 394009926 motif 1; other site 394009927 active site 394009928 motif 2; other site 394009929 motif 3; other site 394009930 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 394009931 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 394009932 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 394009933 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 394009934 Helix-turn-helix domain; Region: HTH_18; pfam12833 394009935 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 394009936 Uncharacterized conserved protein [Function unknown]; Region: COG1683 394009937 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 394009938 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 394009939 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 394009940 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 394009941 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394009942 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394009943 metal binding site [ion binding]; metal-binding site 394009944 active site 394009945 I-site; other site 394009946 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394009947 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 394009948 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 394009949 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394009950 Major Facilitator Superfamily; Region: MFS_1; pfam07690 394009951 putative substrate translocation pore; other site 394009952 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 394009953 Helix-turn-helix domain; Region: HTH_18; pfam12833 394009954 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394009955 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 394009956 UbiA prenyltransferase family; Region: UbiA; pfam01040 394009957 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 394009958 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 394009959 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 394009960 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 394009961 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 394009962 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 394009963 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 394009964 FAD binding domain; Region: FAD_binding_4; pfam01565 394009965 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 394009966 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 394009967 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 394009968 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 394009969 [2Fe-2S] cluster binding site [ion binding]; other site 394009970 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 394009971 putative alpha subunit interface [polypeptide binding]; other site 394009972 putative active site [active] 394009973 putative substrate binding site [chemical binding]; other site 394009974 Fe binding site [ion binding]; other site 394009975 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 394009976 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 394009977 FAD binding pocket [chemical binding]; other site 394009978 FAD binding motif [chemical binding]; other site 394009979 phosphate binding motif [ion binding]; other site 394009980 beta-alpha-beta structure motif; other site 394009981 NAD binding pocket [chemical binding]; other site 394009982 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 394009983 catalytic loop [active] 394009984 iron binding site [ion binding]; other site 394009985 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cd00599 394009986 active site 394009987 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 394009988 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 394009989 Cl binding site [ion binding]; other site 394009990 oligomer interface [polypeptide binding]; other site 394009991 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 394009992 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 394009993 active site 394009994 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 394009995 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394009996 substrate binding site [chemical binding]; other site 394009997 oxyanion hole (OAH) forming residues; other site 394009998 trimer interface [polypeptide binding]; other site 394009999 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 394010000 Cache domain; Region: Cache_1; pfam02743 394010001 HAMP domain; Region: HAMP; pfam00672 394010002 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394010003 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394010004 dimer interface [polypeptide binding]; other site 394010005 putative CheW interface [polypeptide binding]; other site 394010006 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 394010007 TRAM domain; Region: TRAM; cl01282 394010008 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394010009 S-adenosylmethionine binding site [chemical binding]; other site 394010010 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 394010011 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 394010012 RNA binding surface [nucleotide binding]; other site 394010013 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 394010014 Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]; Region: Dxs; COG1154 394010015 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 394010016 TPP-binding site; other site 394010017 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 394010018 PYR/PP interface [polypeptide binding]; other site 394010019 dimer interface [polypeptide binding]; other site 394010020 TPP binding site [chemical binding]; other site 394010021 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 394010022 Pirin-related protein [General function prediction only]; Region: COG1741 394010023 Pirin; Region: Pirin; pfam02678 394010024 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 394010025 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394010026 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394010027 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 394010028 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 394010029 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 394010030 putative active site [active] 394010031 Zn binding site [ion binding]; other site 394010032 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 394010033 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 394010034 NADP binding site [chemical binding]; other site 394010035 dimer interface [polypeptide binding]; other site 394010036 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 394010037 active site 394010038 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 394010039 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 394010040 dimer interface [polypeptide binding]; other site 394010041 active site 394010042 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 394010043 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 394010044 acyl-activating enzyme (AAE) consensus motif; other site 394010045 AMP binding site [chemical binding]; other site 394010046 active site 394010047 CoA binding site [chemical binding]; other site 394010048 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 394010049 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 394010050 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 394010051 Walker A/P-loop; other site 394010052 ATP binding site [chemical binding]; other site 394010053 Q-loop/lid; other site 394010054 ABC transporter signature motif; other site 394010055 Walker B; other site 394010056 D-loop; other site 394010057 H-loop/switch region; other site 394010058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 394010059 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 394010060 protease TldD; Provisional; Region: tldD; PRK10735 394010061 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 394010062 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 394010063 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 394010064 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 394010065 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 394010066 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 394010067 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 394010068 Putative catalytic NodB homology domain of Mesorhizobium loti Mlr8448 protein and its bacterial homologs; Region: CE4_Mlr8448_like_5s; cd10968 394010069 putative active site [active] 394010070 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 394010071 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 394010072 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 394010073 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 394010074 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 394010075 HSP70 interaction site [polypeptide binding]; other site 394010076 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 394010077 substrate binding site [polypeptide binding]; other site 394010078 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 394010079 dimer interface [polypeptide binding]; other site 394010080 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 394010081 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 394010082 NAD binding site [chemical binding]; other site 394010083 homotetramer interface [polypeptide binding]; other site 394010084 homodimer interface [polypeptide binding]; other site 394010085 substrate binding site [chemical binding]; other site 394010086 active site 394010087 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 394010088 catalytic core [active] 394010089 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 394010090 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 394010091 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 394010092 Tetramer interface [polypeptide binding]; other site 394010093 active site 394010094 FMN-binding site [chemical binding]; other site 394010095 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 394010096 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 394010097 dimerization interface [polypeptide binding]; other site 394010098 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 394010099 active site 394010100 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 394010101 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00051 394010102 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 394010103 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 394010104 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 394010105 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 394010106 Subunit I/III interface [polypeptide binding]; other site 394010107 D-pathway; other site 394010108 Subunit I/VIIc interface [polypeptide binding]; other site 394010109 Subunit I/IV interface [polypeptide binding]; other site 394010110 Subunit I/II interface [polypeptide binding]; other site 394010111 Low-spin heme (heme a) binding site [chemical binding]; other site 394010112 Subunit I/VIIa interface [polypeptide binding]; other site 394010113 Subunit I/VIa interface [polypeptide binding]; other site 394010114 Dimer interface; other site 394010115 Putative water exit pathway; other site 394010116 Binuclear center (heme a3/CuB) [ion binding]; other site 394010117 K-pathway; other site 394010118 Subunit I/Vb interface [polypeptide binding]; other site 394010119 Putative proton exit pathway; other site 394010120 Subunit I/VIb interface; other site 394010121 Subunit I/VIc interface [polypeptide binding]; other site 394010122 Electron transfer pathway; other site 394010123 Subunit I/VIIIb interface [polypeptide binding]; other site 394010124 Subunit I/VIIb interface [polypeptide binding]; other site 394010125 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 394010126 UbiA prenyltransferase family; Region: UbiA; pfam01040 394010127 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 394010128 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 394010129 Subunit III/VIIa interface [polypeptide binding]; other site 394010130 Phospholipid binding site [chemical binding]; other site 394010131 Subunit I/III interface [polypeptide binding]; other site 394010132 Subunit III/VIb interface [polypeptide binding]; other site 394010133 Subunit III/VIa interface; other site 394010134 Subunit III/Vb interface [polypeptide binding]; other site 394010135 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 394010136 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 394010137 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 394010138 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 394010139 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 394010140 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 394010141 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 394010142 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 394010143 putative active site [active] 394010144 putative substrate binding site [chemical binding]; other site 394010145 ATP binding site [chemical binding]; other site 394010146 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 394010147 RNA/DNA hybrid binding site [nucleotide binding]; other site 394010148 active site 394010149 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394010150 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 394010151 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394010152 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 394010153 catalytic triad [active] 394010154 dimer interface [polypeptide binding]; other site 394010155 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 394010156 hypothetical protein; Validated; Region: PRK00228 394010157 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 394010158 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 394010159 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394010160 PAS fold; Region: PAS_3; pfam08447 394010161 putative active site [active] 394010162 heme pocket [chemical binding]; other site 394010163 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394010164 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394010165 metal binding site [ion binding]; metal-binding site 394010166 active site 394010167 I-site; other site 394010168 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394010169 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 394010170 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 394010171 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 394010172 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 394010173 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 394010174 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 394010175 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 394010176 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394010177 catalytic residue [active] 394010178 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 394010179 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 394010180 dimerization interface [polypeptide binding]; other site 394010181 ligand binding site [chemical binding]; other site 394010182 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 394010183 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394010184 active site 394010185 motif I; other site 394010186 motif II; other site 394010187 Transcriptional regulators [Transcription]; Region: GntR; COG1802 394010188 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394010189 DNA-binding site [nucleotide binding]; DNA binding site 394010190 FCD domain; Region: FCD; pfam07729 394010191 Protein of unknown function (DUF1284); Region: DUF1284; cl01419 394010192 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394010193 dimerization interface [polypeptide binding]; other site 394010194 putative DNA binding site [nucleotide binding]; other site 394010195 putative Zn2+ binding site [ion binding]; other site 394010196 NIPSNAP; Region: NIPSNAP; pfam07978 394010197 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 394010198 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 394010199 DNA methylase; Region: N6_N4_Mtase; pfam01555 394010200 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394010201 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394010202 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 394010203 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 394010204 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394010205 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 394010206 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 394010207 minor groove reading motif; other site 394010208 helix-hairpin-helix signature motif; other site 394010209 substrate binding pocket [chemical binding]; other site 394010210 active site 394010211 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 394010212 DNA binding and oxoG recognition site [nucleotide binding] 394010213 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5389 394010214 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 394010215 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 394010216 catalytic residues [active] 394010217 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 394010218 putative active site [active] 394010219 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 394010220 AAA domain; Region: AAA_23; pfam13476 394010221 Walker A/P-loop; other site 394010222 ATP binding site [chemical binding]; other site 394010223 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 394010224 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 394010225 ABC transporter signature motif; other site 394010226 Walker B; other site 394010227 D-loop; other site 394010228 H-loop/switch region; other site 394010229 pyruvate phosphate dikinase; Provisional; Region: PRK09279 394010230 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 394010231 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 394010232 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 394010233 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 394010234 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 394010235 Cupin domain; Region: Cupin_2; cl17218 394010236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 394010237 Putative glucoamylase; Region: Glycoamylase; pfam10091 394010238 putative phosphoketolase; Provisional; Region: PRK05261 394010239 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 394010240 TPP-binding site; other site 394010241 XFP C-terminal domain; Region: XFP_C; pfam09363 394010242 Uncharacterized conserved protein [Function unknown]; Region: COG3422 394010243 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 394010244 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 394010245 ligand binding site [chemical binding]; other site 394010246 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 394010247 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 394010248 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 394010249 ATP binding site [chemical binding]; other site 394010250 putative Mg++ binding site [ion binding]; other site 394010251 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394010252 nucleotide binding region [chemical binding]; other site 394010253 ATP-binding site [chemical binding]; other site 394010254 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cl00038 394010255 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 394010256 AAA domain; Region: AAA_30; pfam13604 394010257 AAA domain; Region: AAA_12; pfam13087 394010258 RNase_H superfamily; Region: RNase_H_2; pfam13482 394010259 Transposase; Region: HTH_Tnp_1; pfam01527 394010260 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 394010261 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 394010262 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 394010263 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 394010264 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 394010265 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 394010266 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 394010267 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 394010268 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 394010269 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 394010270 Catalytic site; other site 394010271 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 394010272 Predicted transcriptional regulators [Transcription]; Region: COG1733 394010273 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 394010274 Predicted transcriptional regulators [Transcription]; Region: COG1733 394010275 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 394010276 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 394010277 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 394010278 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 394010279 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 394010280 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 394010281 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 394010282 catalytic loop [active] 394010283 iron binding site [ion binding]; other site 394010284 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 394010285 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 394010286 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 394010287 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 394010288 putative hydrophobic ligand binding site [chemical binding]; other site 394010289 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 394010290 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 394010291 TM-ABC transporter signature motif; other site 394010292 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 394010293 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394010294 TM-ABC transporter signature motif; other site 394010295 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 394010296 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 394010297 Walker A/P-loop; other site 394010298 ATP binding site [chemical binding]; other site 394010299 Q-loop/lid; other site 394010300 ABC transporter signature motif; other site 394010301 Walker B; other site 394010302 D-loop; other site 394010303 H-loop/switch region; other site 394010304 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 394010305 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 394010306 Walker A/P-loop; other site 394010307 ATP binding site [chemical binding]; other site 394010308 Q-loop/lid; other site 394010309 ABC transporter signature motif; other site 394010310 Walker B; other site 394010311 D-loop; other site 394010312 H-loop/switch region; other site 394010313 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 394010314 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 394010315 putative ligand binding site [chemical binding]; other site 394010316 enoyl-CoA hydratase; Provisional; Region: PRK06127 394010317 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394010318 substrate binding site [chemical binding]; other site 394010319 oxyanion hole (OAH) forming residues; other site 394010320 trimer interface [polypeptide binding]; other site 394010321 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 394010322 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394010323 NAD(P) binding site [chemical binding]; other site 394010324 active site 394010325 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 394010326 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 394010327 acyl-activating enzyme (AAE) consensus motif; other site 394010328 AMP binding site [chemical binding]; other site 394010329 active site 394010330 CoA binding site [chemical binding]; other site 394010331 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 394010332 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 394010333 putative active site [active] 394010334 metal binding site [ion binding]; metal-binding site 394010335 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 394010336 active site 394010337 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 394010338 adenylate kinase; Reviewed; Region: adk; PRK00279 394010339 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 394010340 AMP-binding site [chemical binding]; other site 394010341 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 394010342 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 394010343 intersubunit interface [polypeptide binding]; other site 394010344 active site 394010345 Zn2+ binding site [ion binding]; other site 394010346 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 394010347 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 394010348 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 394010349 NAD(P) binding site [chemical binding]; other site 394010350 catalytic residues [active] 394010351 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 394010352 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 394010353 Uncharacterized conserved protein [Function unknown]; Region: COG1359 394010354 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 394010355 tartrate dehydrogenase; Region: TTC; TIGR02089 394010356 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 394010357 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394010358 DNA-binding site [nucleotide binding]; DNA binding site 394010359 FCD domain; Region: FCD; pfam07729 394010360 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394010361 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394010362 NAD(P) binding site [chemical binding]; other site 394010363 active site 394010364 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394010365 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394010366 TM-ABC transporter signature motif; other site 394010367 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394010368 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394010369 Walker A/P-loop; other site 394010370 ATP binding site [chemical binding]; other site 394010371 Q-loop/lid; other site 394010372 ABC transporter signature motif; other site 394010373 Walker B; other site 394010374 D-loop; other site 394010375 H-loop/switch region; other site 394010376 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394010377 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 394010378 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 394010379 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 394010380 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394010381 motif II; other site 394010382 hypothetical protein; Provisional; Region: PRK06194 394010383 classical (c) SDRs; Region: SDR_c; cd05233 394010384 NAD(P) binding site [chemical binding]; other site 394010385 active site 394010386 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 394010387 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 394010388 metal binding site [ion binding]; metal-binding site 394010389 dimer interface [polypeptide binding]; other site 394010390 Cupin domain; Region: Cupin_2; pfam07883 394010391 Cupin domain; Region: Cupin_2; cl17218 394010392 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 394010393 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 394010394 ligand binding site [chemical binding]; other site 394010395 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394010396 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394010397 Walker A/P-loop; other site 394010398 ATP binding site [chemical binding]; other site 394010399 Q-loop/lid; other site 394010400 ABC transporter signature motif; other site 394010401 Walker B; other site 394010402 D-loop; other site 394010403 H-loop/switch region; other site 394010404 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394010405 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 394010406 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394010407 TM-ABC transporter signature motif; other site 394010408 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 394010409 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 394010410 intersubunit interface [polypeptide binding]; other site 394010411 active site 394010412 Zn2+ binding site [ion binding]; other site 394010413 ribulokinase; Provisional; Region: PRK04123 394010414 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 394010415 N- and C-terminal domain interface [polypeptide binding]; other site 394010416 active site 394010417 MgATP binding site [chemical binding]; other site 394010418 catalytic site [active] 394010419 metal binding site [ion binding]; metal-binding site 394010420 carbohydrate binding site [chemical binding]; other site 394010421 homodimer interface [polypeptide binding]; other site 394010422 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 394010423 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394010424 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 394010425 dimerization interface [polypeptide binding]; other site 394010426 substrate binding pocket [chemical binding]; other site 394010427 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 394010428 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 394010429 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 394010430 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 394010431 DctM-like transporters; Region: DctM; pfam06808 394010432 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394010433 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394010434 Transcriptional regulators [Transcription]; Region: FadR; COG2186 394010435 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394010436 DNA-binding site [nucleotide binding]; DNA binding site 394010437 FCD domain; Region: FCD; pfam07729 394010438 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 394010439 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394010440 Transcriptional regulators [Transcription]; Region: FadR; COG2186 394010441 DNA-binding site [nucleotide binding]; DNA binding site 394010442 FCD domain; Region: FCD; pfam07729 394010443 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 394010444 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394010445 NAD(P) binding site [chemical binding]; other site 394010446 active site 394010447 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 394010448 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 394010449 potential frameshift: common BLAST hit: gi|21492924|ref|NP_659999.1| oxidoreductase protein 394010450 classical (c) SDRs; Region: SDR_c; cd05233 394010451 NAD(P) binding site [chemical binding]; other site 394010452 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394010453 active site 394010454 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 394010455 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 394010456 active site 394010457 dimer interface [polypeptide binding]; other site 394010458 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 394010459 dimer interface [polypeptide binding]; other site 394010460 active site 394010461 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 394010462 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 394010463 dimer interface [polypeptide binding]; other site 394010464 active site 394010465 catalytic residue [active] 394010466 metal binding site [ion binding]; metal-binding site 394010467 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 394010468 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394010469 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394010470 active site 394010471 catalytic tetrad [active] 394010472 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394010473 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394010474 active site 394010475 catalytic tetrad [active] 394010476 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 394010477 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 394010478 putative ligand binding site [chemical binding]; other site 394010479 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394010480 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394010481 TM-ABC transporter signature motif; other site 394010482 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394010483 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394010484 Walker A/P-loop; other site 394010485 ATP binding site [chemical binding]; other site 394010486 Q-loop/lid; other site 394010487 ABC transporter signature motif; other site 394010488 Walker B; other site 394010489 D-loop; other site 394010490 H-loop/switch region; other site 394010491 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394010492 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 394010493 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 394010494 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394010495 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394010496 active site 394010497 catalytic tetrad [active] 394010498 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 394010499 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 394010500 TPP-binding site [chemical binding]; other site 394010501 dimer interface [polypeptide binding]; other site 394010502 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 394010503 PYR/PP interface [polypeptide binding]; other site 394010504 dimer interface [polypeptide binding]; other site 394010505 TPP binding site [chemical binding]; other site 394010506 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 394010507 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 394010508 AMP binding site [chemical binding]; other site 394010509 metal binding site [ion binding]; metal-binding site 394010510 active site 394010511 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 394010512 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 394010513 intersubunit interface [polypeptide binding]; other site 394010514 active site 394010515 zinc binding site [ion binding]; other site 394010516 Na+ binding site [ion binding]; other site 394010517 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 394010518 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 394010519 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 394010520 triosephosphate isomerase; Provisional; Region: PRK14565 394010521 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 394010522 substrate binding site [chemical binding]; other site 394010523 dimer interface [polypeptide binding]; other site 394010524 catalytic triad [active] 394010525 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 394010526 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 394010527 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 394010528 ligand binding site [chemical binding]; other site 394010529 homodimer interface [polypeptide binding]; other site 394010530 NAD(P) binding site [chemical binding]; other site 394010531 trimer interface B [polypeptide binding]; other site 394010532 trimer interface A [polypeptide binding]; other site 394010533 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 394010534 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 394010535 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 394010536 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 394010537 HAMP domain; Region: HAMP; pfam00672 394010538 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394010539 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394010540 dimer interface [polypeptide binding]; other site 394010541 putative CheW interface [polypeptide binding]; other site 394010542 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394010543 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394010544 DNA binding site [nucleotide binding] 394010545 domain linker motif; other site 394010546 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 394010547 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394010548 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394010549 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394010550 dimer interface [polypeptide binding]; other site 394010551 conserved gate region; other site 394010552 ABC-ATPase subunit interface; other site 394010553 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394010554 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394010555 dimer interface [polypeptide binding]; other site 394010556 conserved gate region; other site 394010557 putative PBP binding loops; other site 394010558 ABC-ATPase subunit interface; other site 394010559 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394010560 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 394010561 Walker A/P-loop; other site 394010562 ATP binding site [chemical binding]; other site 394010563 Q-loop/lid; other site 394010564 ABC transporter signature motif; other site 394010565 Walker B; other site 394010566 D-loop; other site 394010567 H-loop/switch region; other site 394010568 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 394010569 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 394010570 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 394010571 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 394010572 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 394010573 PcfJ-like protein; Region: PcfJ; pfam14284 394010574 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 394010575 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394010576 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 394010577 Walker A motif; other site 394010578 ATP binding site [chemical binding]; other site 394010579 Walker B motif; other site 394010580 arginine finger; other site 394010581 Peptidase family M41; Region: Peptidase_M41; pfam01434 394010582 Aquifex aeolicus AQ1575 and related proteins, metallophosphatase domain; Region: MPP_AQ1575; cd07390 394010583 putative active site [active] 394010584 putative metal binding site [ion binding]; other site 394010585 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 394010586 active site 394010587 catalytic residues [active] 394010588 DNA binding site [nucleotide binding] 394010589 Int/Topo IB signature motif; other site 394010590 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 394010591 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 394010592 CysD dimerization site [polypeptide binding]; other site 394010593 G1 box; other site 394010594 putative GEF interaction site [polypeptide binding]; other site 394010595 GTP/Mg2+ binding site [chemical binding]; other site 394010596 Switch I region; other site 394010597 G2 box; other site 394010598 G3 box; other site 394010599 Switch II region; other site 394010600 G4 box; other site 394010601 G5 box; other site 394010602 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 394010603 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 394010604 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 394010605 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 394010606 Active Sites [active] 394010607 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 394010608 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 394010609 Active Sites [active] 394010610 choline dehydrogenase; Validated; Region: PRK02106 394010611 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 394010612 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 394010613 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 394010614 NAD(P) binding site [chemical binding]; other site 394010615 catalytic residues [active] 394010616 choline-sulfatase; Region: chol_sulfatase; TIGR03417 394010617 Sulfatase; Region: Sulfatase; cl17466 394010618 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 394010619 transcriptional regulator BetI; Validated; Region: PRK00767 394010620 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394010621 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 394010622 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 394010623 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394010624 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 394010625 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394010626 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394010627 metal binding site [ion binding]; metal-binding site 394010628 active site 394010629 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 394010630 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 394010631 NAD(P) binding site [chemical binding]; other site 394010632 Protein of unknown function (DUF3750); Region: DUF3750; pfam12570 394010633 L-asparaginase II [Amino acid transport and metabolism]; Region: AnsA; COG4448 394010634 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 394010635 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394010636 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 394010637 C-terminal domain interface [polypeptide binding]; other site 394010638 GSH binding site (G-site) [chemical binding]; other site 394010639 dimer interface [polypeptide binding]; other site 394010640 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 394010641 dimer interface [polypeptide binding]; other site 394010642 N-terminal domain interface [polypeptide binding]; other site 394010643 substrate binding pocket (H-site) [chemical binding]; other site 394010644 Protein of unknown function (DUF419); Region: DUF419; cl15265 394010645 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 394010646 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394010647 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 394010648 dimerization interface [polypeptide binding]; other site 394010649 substrate binding pocket [chemical binding]; other site 394010650 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394010651 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 394010652 putative C-terminal domain interface [polypeptide binding]; other site 394010653 putative GSH binding site (G-site) [chemical binding]; other site 394010654 putative dimer interface [polypeptide binding]; other site 394010655 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 394010656 dimer interface [polypeptide binding]; other site 394010657 N-terminal domain interface [polypeptide binding]; other site 394010658 putative substrate binding pocket (H-site) [chemical binding]; other site 394010659 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 394010660 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 394010661 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 394010662 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394010663 putative Zn2+ binding site [ion binding]; other site 394010664 putative DNA binding site [nucleotide binding]; other site 394010665 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 394010666 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 394010667 PhnA protein; Region: PhnA; pfam03831 394010668 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 394010669 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394010670 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394010671 active site 394010672 catalytic tetrad [active] 394010673 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 394010674 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394010675 S-adenosylmethionine binding site [chemical binding]; other site 394010676 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 394010677 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394010678 motif II; other site 394010679 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 394010680 Helix-turn-helix domain; Region: HTH_28; pfam13518 394010681 Winged helix-turn helix; Region: HTH_29; pfam13551 394010682 Homeodomain-like domain; Region: HTH_32; pfam13565 394010683 Integrase core domain; Region: rve; pfam00665 394010684 Integrase core domain; Region: rve_3; pfam13683 394010685 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 394010686 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 394010687 putative NAD(P) binding site [chemical binding]; other site 394010688 catalytic Zn binding site [ion binding]; other site 394010689 structural Zn binding site [ion binding]; other site 394010690 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 394010691 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394010692 aminotransferase; Provisional; Region: PRK13356 394010693 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 394010694 homodimer interface [polypeptide binding]; other site 394010695 substrate-cofactor binding pocket; other site 394010696 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394010697 catalytic residue [active] 394010698 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 394010699 dimer interface [polypeptide binding]; other site 394010700 ligand binding site [chemical binding]; other site 394010701 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 394010702 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394010703 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 394010704 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 394010705 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 394010706 Predicted transcriptional regulator [Transcription]; Region: COG2378 394010707 HTH domain; Region: HTH_11; pfam08279 394010708 WYL domain; Region: WYL; pfam13280 394010709 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 394010710 Cytochrome c556 [Energy production and conversion]; Region: COG3909 394010711 Cytochrome c; Region: Cytochrom_C; pfam00034 394010712 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 394010713 Cytochrome c; Region: Cytochrom_C; pfam00034 394010714 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 394010715 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394010716 Coenzyme A binding pocket [chemical binding]; other site 394010717 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 394010718 DNA binding residues [nucleotide binding] 394010719 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 394010720 dimer interface [polypeptide binding]; other site 394010721 putative metal binding site [ion binding]; other site 394010722 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 394010723 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 394010724 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 394010725 Trp docking motif [polypeptide binding]; other site 394010726 putative active site [active] 394010727 hypothetical protein; Validated; Region: PRK00029 394010728 Uncharacterized conserved protein [Function unknown]; Region: COG0397 394010729 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 394010730 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 394010731 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 394010732 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 394010733 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 394010734 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 394010735 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 394010736 putative metal binding site [ion binding]; other site 394010737 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 394010738 active site 394010739 metal binding site [ion binding]; metal-binding site 394010740 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 394010741 Ligand Binding Site [chemical binding]; other site 394010742 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 394010743 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 394010744 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 394010745 methionine sulfoxide reductase B; Provisional; Region: PRK00222 394010746 SelR domain; Region: SelR; pfam01641 394010747 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 394010748 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 394010749 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 394010750 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 394010751 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 394010752 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12658 394010753 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 394010754 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 394010755 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 394010756 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 394010757 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 394010758 Predicted transcriptional regulator [Transcription]; Region: COG4957 394010759 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 394010760 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394010761 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394010762 dimer interface [polypeptide binding]; other site 394010763 phosphorylation site [posttranslational modification] 394010764 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394010765 ATP binding site [chemical binding]; other site 394010766 Mg2+ binding site [ion binding]; other site 394010767 G-X-G motif; other site 394010768 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 394010769 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 394010770 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 394010771 Uncharacterized conserved protein [Function unknown]; Region: COG5447 394010772 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 394010773 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 394010774 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 394010775 Bacterial SH3 domain; Region: SH3_3; pfam08239 394010776 Predicted integral membrane protein [Function unknown]; Region: COG5436 394010777 Uncharacterized conserved protein [Function unknown]; Region: COG5402 394010778 Transglycosylase; Region: Transgly; pfam00912 394010779 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 394010780 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 394010781 hypothetical protein; Provisional; Region: PRK05170 394010782 Protein of unknown function (DUF419); Region: DUF419; pfam04237 394010783 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394010784 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394010785 active site 394010786 phosphorylation site [posttranslational modification] 394010787 intermolecular recognition site; other site 394010788 dimerization interface [polypeptide binding]; other site 394010789 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394010790 DNA binding site [nucleotide binding] 394010791 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394010792 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394010793 ATP binding site [chemical binding]; other site 394010794 Mg2+ binding site [ion binding]; other site 394010795 G-X-G motif; other site 394010796 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 394010797 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 394010798 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 394010799 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 394010800 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 394010801 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 394010802 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 394010803 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 394010804 protein binding site [polypeptide binding]; other site 394010805 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 394010806 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394010807 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394010808 active site 394010809 phosphorylation site [posttranslational modification] 394010810 intermolecular recognition site; other site 394010811 dimerization interface [polypeptide binding]; other site 394010812 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394010813 DNA binding site [nucleotide binding] 394010814 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394010815 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 394010816 dimerization interface [polypeptide binding]; other site 394010817 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394010818 dimer interface [polypeptide binding]; other site 394010819 phosphorylation site [posttranslational modification] 394010820 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394010821 ATP binding site [chemical binding]; other site 394010822 Mg2+ binding site [ion binding]; other site 394010823 G-X-G motif; other site 394010824 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 394010825 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 394010826 metal binding triad; other site 394010827 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 394010828 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 394010829 metal binding triad; other site 394010830 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394010831 PAS fold; Region: PAS_3; pfam08447 394010832 putative active site [active] 394010833 heme pocket [chemical binding]; other site 394010834 PAS fold; Region: PAS_7; pfam12860 394010835 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394010836 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394010837 dimer interface [polypeptide binding]; other site 394010838 phosphorylation site [posttranslational modification] 394010839 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394010840 ATP binding site [chemical binding]; other site 394010841 Mg2+ binding site [ion binding]; other site 394010842 G-X-G motif; other site 394010843 aminopeptidase N; Provisional; Region: pepN; PRK14015 394010844 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 394010845 active site 394010846 Zn binding site [ion binding]; other site 394010847 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 394010848 EamA-like transporter family; Region: EamA; pfam00892 394010849 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 394010850 Fe-S cluster binding site [ion binding]; other site 394010851 active site 394010852 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 394010853 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 394010854 nucleotide binding site [chemical binding]; other site 394010855 putative NEF/HSP70 interaction site [polypeptide binding]; other site 394010856 SBD interface [polypeptide binding]; other site 394010857 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 394010858 hydroxyglutarate oxidase; Provisional; Region: PRK11728 394010859 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 394010860 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 394010861 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 394010862 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 394010863 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394010864 dimer interface [polypeptide binding]; other site 394010865 conserved gate region; other site 394010866 putative PBP binding loops; other site 394010867 ABC-ATPase subunit interface; other site 394010868 EamA-like transporter family; Region: EamA; pfam00892 394010869 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394010870 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394010871 dimerization interface [polypeptide binding]; other site 394010872 putative DNA binding site [nucleotide binding]; other site 394010873 putative Zn2+ binding site [ion binding]; other site 394010874 AsnC family; Region: AsnC_trans_reg; pfam01037 394010875 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 394010876 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 394010877 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 394010878 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 394010879 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 394010880 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 394010881 Ligand binding site; other site 394010882 Putative Catalytic site; other site 394010883 DXD motif; other site 394010884 AMP nucleosidase; Provisional; Region: PRK08292 394010885 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 394010886 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 394010887 Uncharacterized conserved protein [Function unknown]; Region: COG1742 394010888 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 394010889 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 394010890 C-terminal domain interface [polypeptide binding]; other site 394010891 GSH binding site (G-site) [chemical binding]; other site 394010892 dimer interface [polypeptide binding]; other site 394010893 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 394010894 N-terminal domain interface [polypeptide binding]; other site 394010895 putative dimer interface [polypeptide binding]; other site 394010896 active site 394010897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 394010898 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 394010899 Sel1 repeat; Region: Sel1; cl02723 394010900 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 394010901 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394010902 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394010903 homodimer interface [polypeptide binding]; other site 394010904 catalytic residue [active] 394010905 PilZ domain; Region: PilZ; pfam07238 394010906 Porin subfamily; Region: Porin_2; pfam02530 394010907 NGR_c08150; ROSE temperature sensitve riboswitch 394010908 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 394010909 Porin subfamily; Region: Porin_2; pfam02530 394010910 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 394010911 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 394010912 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 394010913 N-acetyl-D-glucosamine binding site [chemical binding]; other site 394010914 catalytic residue [active] 394010915 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 394010916 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 394010917 dimer interface [polypeptide binding]; other site 394010918 active site 394010919 catalytic residue [active] 394010920 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 394010921 SmpB-tmRNA interface; other site 394010922 Uncharacterized conserved protein [Function unknown]; Region: COG1432 394010923 LabA_like proteins; Region: LabA; cd10911 394010924 putative metal binding site [ion binding]; other site 394010925 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 394010926 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 394010927 Zn2+ binding site [ion binding]; other site 394010928 Mg2+ binding site [ion binding]; other site 394010929 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 394010930 synthetase active site [active] 394010931 NTP binding site [chemical binding]; other site 394010932 metal binding site [ion binding]; metal-binding site 394010933 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 394010934 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 394010935 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 394010936 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 394010937 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 394010938 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 394010939 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 394010940 Catalytic site [active] 394010941 ribonuclease III; Reviewed; Region: PRK12371 394010942 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 394010943 dimerization interface [polypeptide binding]; other site 394010944 active site 394010945 metal binding site [ion binding]; metal-binding site 394010946 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 394010947 dsRNA binding site [nucleotide binding]; other site 394010948 GTPase Era; Reviewed; Region: era; PRK00089 394010949 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 394010950 G1 box; other site 394010951 GTP/Mg2+ binding site [chemical binding]; other site 394010952 Switch I region; other site 394010953 G2 box; other site 394010954 Switch II region; other site 394010955 G3 box; other site 394010956 G4 box; other site 394010957 G5 box; other site 394010958 KH domain; Region: KH_2; pfam07650 394010959 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial homologs of mammalian glycerophosphodiester phosphodiesterase GDE4; Region: GDPD_GDE4_like_1; cd08613 394010960 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 394010961 putative active site [active] 394010962 catalytic site [active] 394010963 putative metal binding site [ion binding]; other site 394010964 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 394010965 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 394010966 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 394010967 putative dimer interface [polypeptide binding]; other site 394010968 N-terminal domain interface [polypeptide binding]; other site 394010969 putative substrate binding pocket (H-site) [chemical binding]; other site 394010970 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 394010971 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394010972 S-adenosylmethionine binding site [chemical binding]; other site 394010973 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394010974 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394010975 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 394010976 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 394010977 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 394010978 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 394010979 RNA binding site [nucleotide binding]; other site 394010980 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 394010981 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 394010982 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 394010983 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 394010984 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394010985 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 394010986 putative NAD(P) binding site [chemical binding]; other site 394010987 active site 394010988 putative substrate binding site [chemical binding]; other site 394010989 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394010990 dimerization interface [polypeptide binding]; other site 394010991 putative DNA binding site [nucleotide binding]; other site 394010992 putative Zn2+ binding site [ion binding]; other site 394010993 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 394010994 hydrophobic ligand binding site; other site 394010995 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 394010996 active site 394010997 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 394010998 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 394010999 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 394011000 Recombination protein O N terminal; Region: RecO_N; pfam11967 394011001 Recombination protein O C terminal; Region: RecO_C; pfam02565 394011002 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 394011003 Predicted membrane protein [Function unknown]; Region: COG5373 394011004 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 394011005 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 394011006 Zn2+ binding site [ion binding]; other site 394011007 Mg2+ binding site [ion binding]; other site 394011008 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 394011009 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 394011010 MOSC domain; Region: MOSC; pfam03473 394011011 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394011012 Major Facilitator Superfamily; Region: MFS_1; pfam07690 394011013 putative substrate translocation pore; other site 394011014 quinolinate synthetase; Provisional; Region: PRK09375 394011015 L-aspartate oxidase; Provisional; Region: PRK07512 394011016 L-aspartate oxidase; Provisional; Region: PRK06175 394011017 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 394011018 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 394011019 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 394011020 dimerization interface [polypeptide binding]; other site 394011021 active site 394011022 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 394011023 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 394011024 E-class dimer interface [polypeptide binding]; other site 394011025 P-class dimer interface [polypeptide binding]; other site 394011026 active site 394011027 Cu2+ binding site [ion binding]; other site 394011028 Zn2+ binding site [ion binding]; other site 394011029 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 394011030 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 394011031 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 394011032 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 394011033 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 394011034 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 394011035 Protein of unknown function (DUF2385); Region: DUF2385; cl11490 394011036 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 394011037 nudix motif; other site 394011038 Uncharacterized conserved protein [Function unknown]; Region: COG2135 394011039 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 394011040 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 394011041 active site 394011042 HIGH motif; other site 394011043 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 394011044 KMSKS motif; other site 394011045 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 394011046 Uncharacterized conserved protein [Function unknown]; Region: COG3791 394011047 Uncharacterized conserved protein [Function unknown]; Region: COG3791 394011048 Uncharacterized conserved protein [Function unknown]; Region: COG3791 394011049 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 394011050 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 394011051 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 394011052 active site 394011053 catalytic residues [active] 394011054 metal binding site [ion binding]; metal-binding site 394011055 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 394011056 Predicted permeases [General function prediction only]; Region: RarD; COG2962 394011057 EamA-like transporter family; Region: EamA; pfam00892 394011058 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 394011059 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 394011060 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 394011061 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 394011062 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 394011063 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 394011064 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 394011065 Walker A/P-loop; other site 394011066 ATP binding site [chemical binding]; other site 394011067 Q-loop/lid; other site 394011068 ABC transporter signature motif; other site 394011069 Walker B; other site 394011070 D-loop; other site 394011071 H-loop/switch region; other site 394011072 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 394011073 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 394011074 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 394011075 CDP-alcohol phosphatidyltransferase 2; Region: CDP-OH_P_tran_2; pfam08009 394011076 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 394011077 classical (c) SDRs; Region: SDR_c; cd05233 394011078 NAD(P) binding site [chemical binding]; other site 394011079 active site 394011080 amidophosphoribosyltransferase; Provisional; Region: PRK09123 394011081 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 394011082 active site 394011083 tetramer interface [polypeptide binding]; other site 394011084 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 394011085 active site 394011086 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 394011087 Colicin V production protein; Region: Colicin_V; pfam02674 394011088 DNA repair protein RadA; Provisional; Region: PRK11823 394011089 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 394011090 Walker A motif/ATP binding site; other site 394011091 ATP binding site [chemical binding]; other site 394011092 Walker B motif; other site 394011093 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 394011094 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 394011095 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 394011096 active site 394011097 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 394011098 dimer interface [polypeptide binding]; other site 394011099 substrate binding site [chemical binding]; other site 394011100 catalytic residues [active] 394011101 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 394011102 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 394011103 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394011104 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394011105 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 394011106 Predicted membrane protein [Function unknown]; Region: COG4541 394011107 replicative DNA helicase; Provisional; Region: PRK09165 394011108 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 394011109 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 394011110 Walker A motif; other site 394011111 ATP binding site [chemical binding]; other site 394011112 Walker B motif; other site 394011113 DNA binding loops [nucleotide binding] 394011114 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 394011115 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 394011116 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 394011117 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 394011118 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 394011119 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 394011120 dimerization interface [polypeptide binding]; other site 394011121 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394011122 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394011123 active site 394011124 catalytic tetrad [active] 394011125 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 394011126 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 394011127 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 394011128 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 394011129 NAD(P) binding site [chemical binding]; other site 394011130 homotetramer interface [polypeptide binding]; other site 394011131 homodimer interface [polypeptide binding]; other site 394011132 active site 394011133 acyl carrier protein; Provisional; Region: acpP; PRK00982 394011134 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 394011135 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 394011136 dimer interface [polypeptide binding]; other site 394011137 active site 394011138 YceG-like family; Region: YceG; pfam02618 394011139 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 394011140 dimerization interface [polypeptide binding]; other site 394011141 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 394011142 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 394011143 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 394011144 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 394011145 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 394011146 catalytic site [active] 394011147 G-X2-G-X-G-K; other site 394011148 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 394011149 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394011150 S-adenosylmethionine binding site [chemical binding]; other site 394011151 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 394011152 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 394011153 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 394011154 SurA N-terminal domain; Region: SurA_N; pfam09312 394011155 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 394011156 Organic solvent tolerance protein; Region: OstA_C; pfam04453 394011157 Predicted permeases [General function prediction only]; Region: COG0795 394011158 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 394011159 Predicted permeases [General function prediction only]; Region: COG0795 394011160 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 394011161 multifunctional aminopeptidase A; Provisional; Region: PRK00913 394011162 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 394011163 interface (dimer of trimers) [polypeptide binding]; other site 394011164 Substrate-binding/catalytic site; other site 394011165 Zn-binding sites [ion binding]; other site 394011166 DNA polymerase III subunit chi; Validated; Region: PRK05728 394011167 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394011168 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394011169 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394011170 Coenzyme A binding pocket [chemical binding]; other site 394011171 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 394011172 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 394011173 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 394011174 ABC transporter; Region: ABC_tran_2; pfam12848 394011175 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 394011176 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 394011177 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 394011178 acyl-activating enzyme (AAE) consensus motif; other site 394011179 AMP binding site [chemical binding]; other site 394011180 active site 394011181 CoA binding site [chemical binding]; other site 394011182 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 394011183 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 394011184 GST_N family, Beta etherase LigE subfamily; composed of proteins similar to Sphingomonas paucimobilis beta etherase, LigE, a GST-like protein that catalyzes the cleavage of the beta-aryl ether linkages present in low-moleculer weight lignins using GSH as...; Region: GST_N_etherase_LigE; cd03038 394011185 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394011186 putative C-terminal domain interface [polypeptide binding]; other site 394011187 putative GSH binding site (G-site) [chemical binding]; other site 394011188 putative dimer interface [polypeptide binding]; other site 394011189 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 394011190 putative N-terminal domain interface [polypeptide binding]; other site 394011191 putative dimer interface [polypeptide binding]; other site 394011192 putative substrate binding pocket (H-site) [chemical binding]; other site 394011193 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 394011194 active site 394011195 multimer interface [polypeptide binding]; other site 394011196 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 394011197 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 394011198 CGNR zinc finger; Region: zf-CGNR; pfam11706 394011199 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 394011200 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394011201 TM-ABC transporter signature motif; other site 394011202 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 394011203 MoaE homodimer interface [polypeptide binding]; other site 394011204 MoaD interaction [polypeptide binding]; other site 394011205 active site residues [active] 394011206 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 394011207 MoaE interaction surface [polypeptide binding]; other site 394011208 MoeB interaction surface [polypeptide binding]; other site 394011209 thiocarboxylated glycine; other site 394011210 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 394011211 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 394011212 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 394011213 GIY-YIG motif/motif A; other site 394011214 active site 394011215 catalytic site [active] 394011216 putative DNA binding site [nucleotide binding]; other site 394011217 metal binding site [ion binding]; metal-binding site 394011218 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 394011219 short chain dehydrogenase; Provisional; Region: PRK09134 394011220 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394011221 NAD(P) binding site [chemical binding]; other site 394011222 active site 394011223 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 394011224 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394011225 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 394011226 putative C-terminal domain interface [polypeptide binding]; other site 394011227 putative GSH binding site (G-site) [chemical binding]; other site 394011228 putative dimer interface [polypeptide binding]; other site 394011229 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 394011230 N-terminal domain interface [polypeptide binding]; other site 394011231 dimer interface [polypeptide binding]; other site 394011232 putative substrate binding pocket (H-site) [chemical binding]; other site 394011233 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 394011234 B1 nucleotide binding pocket [chemical binding]; other site 394011235 B2 nucleotide binding pocket [chemical binding]; other site 394011236 CAS motifs; other site 394011237 active site 394011238 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 394011239 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 394011240 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 394011241 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 394011242 putative [4Fe-4S] binding site [ion binding]; other site 394011243 putative molybdopterin cofactor binding site [chemical binding]; other site 394011244 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 394011245 molybdopterin cofactor binding site; other site 394011246 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 394011247 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 394011248 dimer interface [polypeptide binding]; other site 394011249 ADP-ribose binding site [chemical binding]; other site 394011250 active site 394011251 nudix motif; other site 394011252 metal binding site [ion binding]; metal-binding site 394011253 Predicted integral membrane protein [Function unknown]; Region: COG0392 394011254 Uncharacterized conserved protein [Function unknown]; Region: COG2898 394011255 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 394011256 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 394011257 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 394011258 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 394011259 Transposase domain (DUF772); Region: DUF772; pfam05598 394011260 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 394011261 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 394011262 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 394011263 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 394011264 active site 394011265 substrate binding site [chemical binding]; other site 394011266 cosubstrate binding site; other site 394011267 catalytic site [active] 394011268 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 394011269 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 394011270 dimerization interface [polypeptide binding]; other site 394011271 putative ATP binding site [chemical binding]; other site 394011272 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 394011273 Domain of unknown function DUF20; Region: UPF0118; pfam01594 394011274 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 394011275 hypothetical protein; Validated; Region: PRK09087 394011276 polyphosphate kinase; Provisional; Region: PRK05443 394011277 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 394011278 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 394011279 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 394011280 putative domain interface [polypeptide binding]; other site 394011281 putative active site [active] 394011282 catalytic site [active] 394011283 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 394011284 putative domain interface [polypeptide binding]; other site 394011285 putative active site [active] 394011286 catalytic site [active] 394011287 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 394011288 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 394011289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 394011290 Protein of unknown function (DUF2000); Region: DUF2000; cl02074 394011291 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394011292 cyclase homology domain; Region: CHD; cd07302 394011293 nucleotidyl binding site; other site 394011294 metal binding site [ion binding]; metal-binding site 394011295 dimer interface [polypeptide binding]; other site 394011296 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 394011297 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 394011298 catalytic site [active] 394011299 putative active site [active] 394011300 putative substrate binding site [chemical binding]; other site 394011301 HRDC domain; Region: HRDC; pfam00570 394011302 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 394011303 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 394011304 Multicopper oxidase; Region: Cu-oxidase; pfam00394 394011305 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 394011306 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394011307 putative MFS family transporter protein; Provisional; Region: PRK03633 394011308 putative substrate translocation pore; other site 394011309 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 394011310 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 394011311 dimer interface [polypeptide binding]; other site 394011312 anticodon binding site; other site 394011313 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 394011314 homodimer interface [polypeptide binding]; other site 394011315 motif 1; other site 394011316 active site 394011317 motif 2; other site 394011318 GAD domain; Region: GAD; pfam02938 394011319 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 394011320 active site 394011321 motif 3; other site 394011322 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 394011323 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 394011324 ring oligomerisation interface [polypeptide binding]; other site 394011325 ATP/Mg binding site [chemical binding]; other site 394011326 stacking interactions; other site 394011327 hinge regions; other site 394011328 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 394011329 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 394011330 CAP-like domain; other site 394011331 active site 394011332 primary dimer interface [polypeptide binding]; other site 394011333 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394011334 putative DNA binding site [nucleotide binding]; other site 394011335 putative Zn2+ binding site [ion binding]; other site 394011336 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 394011337 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 394011338 Predicted membrane protein/domain [Function unknown]; Region: COG1714 394011339 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 394011340 dimer interface [polypeptide binding]; other site 394011341 allosteric magnesium binding site [ion binding]; other site 394011342 active site 394011343 aspartate-rich active site metal binding site; other site 394011344 Schiff base residues; other site 394011345 Transcriptional regulators [Transcription]; Region: MarR; COG1846 394011346 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 394011347 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 394011348 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 394011349 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 394011350 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 394011351 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 394011352 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 394011353 dimer interface [polypeptide binding]; other site 394011354 active site 394011355 glycine-pyridoxal phosphate binding site [chemical binding]; other site 394011356 folate binding site [chemical binding]; other site 394011357 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 394011358 ATP cone domain; Region: ATP-cone; pfam03477 394011359 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 394011360 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 394011361 catalytic motif [active] 394011362 Zn binding site [ion binding]; other site 394011363 RibD C-terminal domain; Region: RibD_C; cl17279 394011364 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 394011365 Lumazine binding domain; Region: Lum_binding; pfam00677 394011366 Lumazine binding domain; Region: Lum_binding; pfam00677 394011367 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 394011368 Cupin domain; Region: Cupin_2; cl17218 394011369 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 394011370 homopentamer interface [polypeptide binding]; other site 394011371 active site 394011372 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 394011373 putative RNA binding site [nucleotide binding]; other site 394011374 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 394011375 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 394011376 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 394011377 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 394011378 Uncharacterized conserved protein [Function unknown]; Region: COG5452 394011379 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 394011380 putative phosphate acyltransferase; Provisional; Region: PRK05331 394011381 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 394011382 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 394011383 dimer interface [polypeptide binding]; other site 394011384 active site 394011385 CoA binding pocket [chemical binding]; other site 394011386 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 394011387 IHF dimer interface [polypeptide binding]; other site 394011388 IHF - DNA interface [nucleotide binding]; other site 394011389 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 394011390 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 394011391 DNA binding residues [nucleotide binding] 394011392 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 394011393 Ligand Binding Site [chemical binding]; other site 394011394 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 394011395 putative protease; Provisional; Region: PRK15447 394011396 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 394011397 Peptidase family U32; Region: Peptidase_U32; pfam01136 394011398 SCP-2 sterol transfer family; Region: SCP2; cl01225 394011399 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 394011400 NnrU protein; Region: NnrU; cl17713 394011401 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 394011402 Subunit I/III interface [polypeptide binding]; other site 394011403 Cytochrome c; Region: Cytochrom_C; pfam00034 394011404 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 394011405 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 394011406 D-pathway; other site 394011407 K-pathway; other site 394011408 Binuclear center (active site) [active] 394011409 Putative proton exit pathway; other site 394011410 MoxR-like ATPases [General function prediction only]; Region: COG0714 394011411 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394011412 Walker A motif; other site 394011413 ATP binding site [chemical binding]; other site 394011414 Walker B motif; other site 394011415 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 394011416 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 394011417 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 394011418 metal ion-dependent adhesion site (MIDAS); other site 394011419 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 394011420 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394011421 FeS/SAM binding site; other site 394011422 HemN C-terminal domain; Region: HemN_C; pfam06969 394011423 Uncharacterized conserved protein [Function unknown]; Region: COG4309 394011424 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 394011425 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 394011426 CPxP motif; other site 394011427 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 394011428 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 394011429 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 394011430 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 394011431 Multicopper oxidase; Region: Cu-oxidase; pfam00394 394011432 Uncharacterized conserved protein [Function unknown]; Region: COG1262 394011433 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 394011434 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 394011435 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 394011436 ligand binding site [chemical binding]; other site 394011437 flexible hinge region; other site 394011438 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 394011439 putative switch regulator; other site 394011440 non-specific DNA interactions [nucleotide binding]; other site 394011441 DNA binding site [nucleotide binding] 394011442 sequence specific DNA binding site [nucleotide binding]; other site 394011443 putative cAMP binding site [chemical binding]; other site 394011444 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 394011445 pseudoazurin; Region: pseudoazurin; TIGR02375 394011446 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 394011447 ferredoxin-type protein; Provisional; Region: PRK10194 394011448 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 394011449 NapD protein; Region: NapD; cl01163 394011450 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 394011451 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 394011452 [4Fe-4S] binding site [ion binding]; other site 394011453 molybdopterin cofactor binding site; other site 394011454 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 394011455 molybdopterin cofactor binding site; other site 394011456 Nitrate reductase cytochrome c-type subunit [Energy production and conversion]; Region: NapB; COG3043 394011457 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 394011458 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 394011459 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 394011460 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 394011461 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 394011462 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 394011463 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 394011464 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394011465 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 394011466 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 394011467 SLBB domain; Region: SLBB; pfam10531 394011468 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 394011469 Chain length determinant protein; Region: Wzz; cl15801 394011470 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 394011471 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 394011472 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 394011473 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 394011474 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 394011475 trimer interface [polypeptide binding]; other site 394011476 active site 394011477 substrate binding site [chemical binding]; other site 394011478 CoA binding site [chemical binding]; other site 394011479 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 394011480 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 394011481 active site 394011482 metal binding site [ion binding]; metal-binding site 394011483 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 394011484 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 394011485 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 394011486 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 394011487 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 394011488 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 394011489 agmatinase; Region: agmatinase; TIGR01230 394011490 oligomer interface [polypeptide binding]; other site 394011491 putative active site [active] 394011492 Mn binding site [ion binding]; other site 394011493 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 394011494 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 394011495 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 394011496 23S rRNA interface [nucleotide binding]; other site 394011497 L3 interface [polypeptide binding]; other site 394011498 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 394011499 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 394011500 CoenzymeA binding site [chemical binding]; other site 394011501 subunit interaction site [polypeptide binding]; other site 394011502 PHB binding site; other site 394011503 enoyl-CoA hydratase; Validated; Region: PRK08139 394011504 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394011505 substrate binding site [chemical binding]; other site 394011506 oxyanion hole (OAH) forming residues; other site 394011507 trimer interface [polypeptide binding]; other site 394011508 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 394011509 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 394011510 EamA-like transporter family; Region: EamA; pfam00892 394011511 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 394011512 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 394011513 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 394011514 homodimer interface [polypeptide binding]; other site 394011515 substrate-cofactor binding pocket; other site 394011516 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394011517 catalytic residue [active] 394011518 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 394011519 Right handed beta helix region; Region: Beta_helix; pfam13229 394011520 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 394011521 Cytochrome P450; Region: p450; cl12078 394011522 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 394011523 putative catalytic site [active] 394011524 putative metal binding site [ion binding]; other site 394011525 putative phosphate binding site [ion binding]; other site 394011526 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 394011527 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 394011528 putative active site [active] 394011529 catalytic site [active] 394011530 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 394011531 putative active site [active] 394011532 catalytic site [active] 394011533 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 394011534 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 394011535 oligomer interface [polypeptide binding]; other site 394011536 active site residues [active] 394011537 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 394011538 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 394011539 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394011540 Walker A motif; other site 394011541 ATP binding site [chemical binding]; other site 394011542 Walker B motif; other site 394011543 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 394011544 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 394011545 Found in ATP-dependent protease La (LON); Region: LON; smart00464 394011546 Found in ATP-dependent protease La (LON); Region: LON; smart00464 394011547 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394011548 Walker A motif; other site 394011549 ATP binding site [chemical binding]; other site 394011550 Walker B motif; other site 394011551 arginine finger; other site 394011552 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 394011553 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 394011554 IHF dimer interface [polypeptide binding]; other site 394011555 IHF - DNA interface [nucleotide binding]; other site 394011556 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 394011557 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 394011558 MarR family; Region: MarR; pfam01047 394011559 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 394011560 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 394011561 dimerization interface [polypeptide binding]; other site 394011562 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394011563 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394011564 dimer interface [polypeptide binding]; other site 394011565 putative CheW interface [polypeptide binding]; other site 394011566 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 394011567 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 394011568 active site 394011569 metal binding site [ion binding]; metal-binding site 394011570 DNA binding site [nucleotide binding] 394011571 Uncharacterized conserved protein [Function unknown]; Region: COG4717 394011572 P-loop containing region of AAA domain; Region: AAA_29; cl17516 394011573 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 394011574 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 394011575 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 394011576 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 394011577 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 394011578 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 394011579 NADH dehydrogenase subunit D; Validated; Region: PRK06075 394011580 NADH dehydrogenase subunit E; Validated; Region: PRK07539 394011581 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 394011582 putative dimer interface [polypeptide binding]; other site 394011583 [2Fe-2S] cluster binding site [ion binding]; other site 394011584 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 394011585 SLBB domain; Region: SLBB; pfam10531 394011586 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 394011587 Uncharacterized conserved protein [Function unknown]; Region: COG3743 394011588 NADH dehydrogenase subunit G; Validated; Region: PRK09130 394011589 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 394011590 catalytic loop [active] 394011591 iron binding site [ion binding]; other site 394011592 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 394011593 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 394011594 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 394011595 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 394011596 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 394011597 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 394011598 4Fe-4S binding domain; Region: Fer4; pfam00037 394011599 4Fe-4S binding domain; Region: Fer4; pfam00037 394011600 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 394011601 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 394011602 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 394011603 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 394011604 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 394011605 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; cl01178 394011606 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 394011607 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 394011608 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 394011609 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 394011610 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 394011611 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 394011612 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 394011613 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 394011614 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 394011615 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 394011616 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 394011617 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 394011618 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394011619 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 394011620 dimer interface [polypeptide binding]; other site 394011621 substrate binding site [chemical binding]; other site 394011622 metal binding site [ion binding]; metal-binding site 394011623 Protein of unknown function (DUF1467); Region: DUF1467; cl11569 394011624 prolyl-tRNA synthetase; Provisional; Region: PRK12325 394011625 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 394011626 dimer interface [polypeptide binding]; other site 394011627 motif 1; other site 394011628 active site 394011629 motif 2; other site 394011630 motif 3; other site 394011631 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 394011632 anticodon binding site; other site 394011633 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 394011634 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 394011635 FtsX-like permease family; Region: FtsX; pfam02687 394011636 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 394011637 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 394011638 Walker A/P-loop; other site 394011639 ATP binding site [chemical binding]; other site 394011640 Q-loop/lid; other site 394011641 ABC transporter signature motif; other site 394011642 Walker B; other site 394011643 D-loop; other site 394011644 H-loop/switch region; other site 394011645 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 394011646 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 394011647 putative active site [active] 394011648 putative PHP Thumb interface [polypeptide binding]; other site 394011649 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 394011650 generic binding surface II; other site 394011651 generic binding surface I; other site 394011652 hypothetical protein; Provisional; Region: PRK06132 394011653 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 394011654 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 394011655 DNA polymerase IV; Provisional; Region: PRK02794 394011656 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 394011657 active site 394011658 DNA binding site [nucleotide binding] 394011659 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 394011660 Coenzyme A binding pocket [chemical binding]; other site 394011661 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 394011662 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 394011663 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394011664 active site 394011665 phosphorylation site [posttranslational modification] 394011666 intermolecular recognition site; other site 394011667 dimerization interface [polypeptide binding]; other site 394011668 response regulator PleD; Reviewed; Region: pleD; PRK09581 394011669 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394011670 active site 394011671 phosphorylation site [posttranslational modification] 394011672 intermolecular recognition site; other site 394011673 dimerization interface [polypeptide binding]; other site 394011674 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394011675 active site 394011676 phosphorylation site [posttranslational modification] 394011677 intermolecular recognition site; other site 394011678 dimerization interface [polypeptide binding]; other site 394011679 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394011680 metal binding site [ion binding]; metal-binding site 394011681 active site 394011682 I-site; other site 394011683 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 394011684 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394011685 Major Facilitator Superfamily; Region: MFS_1; pfam07690 394011686 putative substrate translocation pore; other site 394011687 hypothetical protein; Provisional; Region: PRK05978 394011688 ribonuclease R; Region: RNase_R; TIGR02063 394011689 RNB domain; Region: RNB; pfam00773 394011690 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 394011691 RNA binding site [nucleotide binding]; other site 394011692 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 394011693 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 394011694 active site 394011695 interdomain interaction site; other site 394011696 putative metal-binding site [ion binding]; other site 394011697 nucleotide binding site [chemical binding]; other site 394011698 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 394011699 domain I; other site 394011700 DNA binding groove [nucleotide binding] 394011701 phosphate binding site [ion binding]; other site 394011702 domain II; other site 394011703 domain III; other site 394011704 nucleotide binding site [chemical binding]; other site 394011705 catalytic site [active] 394011706 domain IV; other site 394011707 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 394011708 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 394011709 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 394011710 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 394011711 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 394011712 DNA protecting protein DprA; Region: dprA; TIGR00732 394011713 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 394011714 dihydroorotase; Validated; Region: PRK09059 394011715 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 394011716 active site 394011717 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 394011718 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 394011719 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 394011720 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 394011721 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 394011722 active site 394011723 Predicted permeases [General function prediction only]; Region: COG0679 394011724 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 394011725 metal-dependent hydrolase; Provisional; Region: PRK00685 394011726 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 394011727 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 394011728 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 394011729 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 394011730 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394011731 Coenzyme A binding pocket [chemical binding]; other site 394011732 hypothetical protein; Provisional; Region: PRK13687 394011733 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 394011734 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 394011735 GatB domain; Region: GatB_Yqey; smart00845 394011736 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 394011737 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394011738 Coenzyme A binding pocket [chemical binding]; other site 394011739 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 394011740 putative catalytic residues [active] 394011741 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 394011742 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394011743 Coenzyme A binding pocket [chemical binding]; other site 394011744 NADH dehydrogenase; Validated; Region: PRK08183 394011745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 394011746 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 394011747 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 394011748 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 394011749 ATP-grasp domain; Region: ATP-grasp_4; cl17255 394011750 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 394011751 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 394011752 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 394011753 carboxyltransferase (CT) interaction site; other site 394011754 biotinylation site [posttranslational modification]; other site 394011755 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 394011756 Dehydroquinase class II; Region: DHquinase_II; pfam01220 394011757 trimer interface [polypeptide binding]; other site 394011758 active site 394011759 dimer interface [polypeptide binding]; other site 394011760 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 394011761 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 394011762 catalytic residues [active] 394011763 aspartate aminotransferase; Provisional; Region: PRK05764 394011764 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394011765 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394011766 homodimer interface [polypeptide binding]; other site 394011767 catalytic residue [active] 394011768 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 394011769 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 394011770 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 394011771 AMIN domain; Region: AMIN; pfam11741 394011772 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 394011773 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 394011774 active site 394011775 metal binding site [ion binding]; metal-binding site 394011776 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 394011777 Transglycosylase; Region: Transgly; pfam00912 394011778 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 394011779 peptide chain release factor 2; Provisional; Region: PRK07342 394011780 This domain is found in peptide chain release factors; Region: PCRF; smart00937 394011781 RF-1 domain; Region: RF-1; pfam00472 394011782 ATP-NAD kinase; Region: NAD_kinase; pfam01513 394011783 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 394011784 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 394011785 nucleotide binding site [chemical binding]; other site 394011786 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 394011787 RNA/DNA hybrid binding site [nucleotide binding]; other site 394011788 active site 394011789 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP); Region: NGN_SP; cd09886 394011790 transcriptional activator RfaH; Region: RfaH; TIGR01955 394011791 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 394011792 heterodimer interface [polypeptide binding]; other site 394011793 homodimer interface [polypeptide binding]; other site 394011794 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 394011795 Terminase-like family; Region: Terminase_6; pfam03237 394011796 Bacteriophage terminase large (ATPase) subunit and inactivated derivatives [General function prediction only]; Region: COG5565 394011797 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 394011798 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 394011799 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 394011800 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 394011801 catalytic residue [active] 394011802 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 394011803 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 394011804 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 394011805 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 394011806 Catalytic site; other site 394011807 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 394011808 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 394011809 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 394011810 DNA binding site [nucleotide binding] 394011811 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 394011812 DNA methylase; Region: N6_N4_Mtase; pfam01555 394011813 DNA methylase; Region: N6_N4_Mtase; pfam01555 394011814 Restriction endonuclease; Region: Mrr_cat; pfam04471 394011815 Helix-turn-helix domain; Region: HTH_17; cl17695 394011816 integrase; Provisional; Region: PRK09692 394011817 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 394011818 active site 394011819 Int/Topo IB signature motif; other site 394011820 LysR family transcriptional regulator; Provisional; Region: PRK14997 394011821 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394011822 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 394011823 putative effector binding pocket; other site 394011824 putative dimerization interface [polypeptide binding]; other site 394011825 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 394011826 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 394011827 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 394011828 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 394011829 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 394011830 elongation factor Tu; Reviewed; Region: PRK00049 394011831 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 394011832 G1 box; other site 394011833 GEF interaction site [polypeptide binding]; other site 394011834 GTP/Mg2+ binding site [chemical binding]; other site 394011835 Switch I region; other site 394011836 G2 box; other site 394011837 G3 box; other site 394011838 Switch II region; other site 394011839 G4 box; other site 394011840 G5 box; other site 394011841 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 394011842 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 394011843 Antibiotic Binding Site [chemical binding]; other site 394011844 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394011845 extended (e) SDRs; Region: SDR_e; cd08946 394011846 NAD(P) binding site [chemical binding]; other site 394011847 active site 394011848 substrate binding site [chemical binding]; other site 394011849 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 394011850 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 394011851 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 394011852 putative homodimer interface [polypeptide binding]; other site 394011853 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 394011854 heterodimer interface [polypeptide binding]; other site 394011855 homodimer interface [polypeptide binding]; other site 394011856 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 394011857 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 394011858 23S rRNA interface [nucleotide binding]; other site 394011859 L7/L12 interface [polypeptide binding]; other site 394011860 putative thiostrepton binding site; other site 394011861 L25 interface [polypeptide binding]; other site 394011862 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 394011863 mRNA/rRNA interface [nucleotide binding]; other site 394011864 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 394011865 23S rRNA interface [nucleotide binding]; other site 394011866 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 394011867 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 394011868 L11 interface [polypeptide binding]; other site 394011869 putative EF-Tu interaction site [polypeptide binding]; other site 394011870 putative EF-G interaction site [polypeptide binding]; other site 394011871 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 394011872 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 394011873 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 394011874 RPB11 interaction site [polypeptide binding]; other site 394011875 RPB12 interaction site [polypeptide binding]; other site 394011876 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 394011877 RPB1 interaction site [polypeptide binding]; other site 394011878 RPB11 interaction site [polypeptide binding]; other site 394011879 RPB10 interaction site [polypeptide binding]; other site 394011880 RPB3 interaction site [polypeptide binding]; other site 394011881 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 394011882 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 394011883 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 394011884 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 394011885 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 394011886 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 394011887 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 394011888 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 394011889 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 394011890 DNA binding site [nucleotide binding] 394011891 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 394011892 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 394011893 S17 interaction site [polypeptide binding]; other site 394011894 S8 interaction site; other site 394011895 16S rRNA interaction site [nucleotide binding]; other site 394011896 streptomycin interaction site [chemical binding]; other site 394011897 23S rRNA interaction site [nucleotide binding]; other site 394011898 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 394011899 30S ribosomal protein S7; Validated; Region: PRK05302 394011900 elongation factor G; Reviewed; Region: PRK00007 394011901 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 394011902 G1 box; other site 394011903 putative GEF interaction site [polypeptide binding]; other site 394011904 GTP/Mg2+ binding site [chemical binding]; other site 394011905 Switch I region; other site 394011906 G2 box; other site 394011907 G3 box; other site 394011908 Switch II region; other site 394011909 G4 box; other site 394011910 G5 box; other site 394011911 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 394011912 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 394011913 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 394011914 elongation factor Tu; Reviewed; Region: PRK00049 394011915 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 394011916 G1 box; other site 394011917 GEF interaction site [polypeptide binding]; other site 394011918 GTP/Mg2+ binding site [chemical binding]; other site 394011919 Switch I region; other site 394011920 G2 box; other site 394011921 G3 box; other site 394011922 Switch II region; other site 394011923 G4 box; other site 394011924 G5 box; other site 394011925 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 394011926 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 394011927 Antibiotic Binding Site [chemical binding]; other site 394011928 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 394011929 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 394011930 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 394011931 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 394011932 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 394011933 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 394011934 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 394011935 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 394011936 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 394011937 putative translocon binding site; other site 394011938 protein-rRNA interface [nucleotide binding]; other site 394011939 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 394011940 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 394011941 G-X-X-G motif; other site 394011942 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 394011943 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 394011944 23S rRNA interface [nucleotide binding]; other site 394011945 5S rRNA interface [nucleotide binding]; other site 394011946 putative antibiotic binding site [chemical binding]; other site 394011947 L25 interface [polypeptide binding]; other site 394011948 L27 interface [polypeptide binding]; other site 394011949 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 394011950 23S rRNA interface [nucleotide binding]; other site 394011951 putative translocon interaction site; other site 394011952 signal recognition particle (SRP54) interaction site; other site 394011953 L23 interface [polypeptide binding]; other site 394011954 trigger factor interaction site; other site 394011955 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 394011956 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 394011957 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 394011958 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 394011959 RNA binding site [nucleotide binding]; other site 394011960 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 394011961 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 394011962 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 394011963 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 394011964 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 394011965 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 394011966 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 394011967 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 394011968 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 394011969 23S rRNA interface [nucleotide binding]; other site 394011970 L21e interface [polypeptide binding]; other site 394011971 5S rRNA interface [nucleotide binding]; other site 394011972 L27 interface [polypeptide binding]; other site 394011973 L5 interface [polypeptide binding]; other site 394011974 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 394011975 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 394011976 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 394011977 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 394011978 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 394011979 SecY translocase; Region: SecY; pfam00344 394011980 adenylate kinase; Reviewed; Region: adk; PRK00279 394011981 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 394011982 AMP-binding site [chemical binding]; other site 394011983 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 394011984 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 394011985 30S ribosomal protein S13; Region: bact_S13; TIGR03631 394011986 30S ribosomal protein S11; Validated; Region: PRK05309 394011987 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 394011988 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 394011989 alphaNTD homodimer interface [polypeptide binding]; other site 394011990 alphaNTD - beta interaction site [polypeptide binding]; other site 394011991 alphaNTD - beta' interaction site [polypeptide binding]; other site 394011992 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 394011993 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 394011994 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 394011995 TMAO/DMSO reductase; Reviewed; Region: PRK05363 394011996 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 394011997 Moco binding site; other site 394011998 metal coordination site [ion binding]; other site 394011999 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 394012000 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 394012001 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 394012002 protein binding site [polypeptide binding]; other site 394012003 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 394012004 protein binding site [polypeptide binding]; other site 394012005 recombination factor protein RarA; Reviewed; Region: PRK13342 394012006 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394012007 Walker A motif; other site 394012008 ATP binding site [chemical binding]; other site 394012009 Walker B motif; other site 394012010 arginine finger; other site 394012011 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 394012012 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 394012013 Chaperone required for the assembly of the mitochondrial F1-ATPase [Posttranslational modification, protein turnover, chaperones]; Region: COG5387 394012014 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 394012015 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394012016 motif II; other site 394012017 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 394012018 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 394012019 RNA binding surface [nucleotide binding]; other site 394012020 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 394012021 active site 394012022 Domain of unknown function (DUF1883); Region: DUF1883; pfam08980 394012023 S-formylglutathione hydrolase; Region: PLN02442 394012024 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 394012025 Predicted membrane protein [Function unknown]; Region: COG4291 394012026 hypothetical protein; Validated; Region: PRK00124 394012027 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 394012028 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 394012029 substrate binding site [chemical binding]; other site 394012030 catalytic Zn binding site [ion binding]; other site 394012031 NAD binding site [chemical binding]; other site 394012032 structural Zn binding site [ion binding]; other site 394012033 dimer interface [polypeptide binding]; other site 394012034 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394012035 non-specific DNA binding site [nucleotide binding]; other site 394012036 salt bridge; other site 394012037 sequence-specific DNA binding site [nucleotide binding]; other site 394012038 EamA-like transporter family; Region: EamA; pfam00892 394012039 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 394012040 lipoate-protein ligase B; Provisional; Region: PRK14341 394012041 PrkA family serine protein kinase; Provisional; Region: PRK15455 394012042 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 394012043 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 394012044 Uncharacterized conserved protein [Function unknown]; Region: COG2718 394012045 SpoVR family protein; Provisional; Region: PRK11767 394012046 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 394012047 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 394012048 active site 394012049 catalytic residues [active] 394012050 metal binding site [ion binding]; metal-binding site 394012051 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 394012052 MgtE intracellular N domain; Region: MgtE_N; smart00924 394012053 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 394012054 Divalent cation transporter; Region: MgtE; cl00786 394012055 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 394012056 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 394012057 DNA binding residues [nucleotide binding] 394012058 putative dimer interface [polypeptide binding]; other site 394012059 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 394012060 Predicted membrane protein [Function unknown]; Region: COG3503 394012061 Predicted membrane protein [Function unknown]; Region: COG3821 394012062 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 394012063 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 394012064 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 394012065 Uncharacterized conserved protein [Function unknown]; Region: COG5458 394012066 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 394012067 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 394012068 Sporulation related domain; Region: SPOR; pfam05036 394012069 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 394012070 PilZ domain; Region: PilZ; cl01260 394012071 PilZ domain; Region: PilZ; pfam07238 394012072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 394012073 PAS domain; Region: PAS_5; pfam07310 394012074 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 394012075 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 394012076 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 394012077 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 394012078 nucleophile elbow; other site 394012079 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 394012080 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 394012081 GTP cyclohydrolase I; Provisional; Region: PLN03044 394012082 active site 394012083 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 394012084 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 394012085 trimerization site [polypeptide binding]; other site 394012086 active site 394012087 Uncharacterized conserved protein (DUF2267); Region: DUF2267; cl02314 394012088 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3797 394012089 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 394012090 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 394012091 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 394012092 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 394012093 active site 394012094 dimer interface [polypeptide binding]; other site 394012095 motif 1; other site 394012096 motif 2; other site 394012097 motif 3; other site 394012098 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 394012099 anticodon binding site; other site 394012100 CHASE4 domain; Region: CHASE4; pfam05228 394012101 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394012102 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394012103 metal binding site [ion binding]; metal-binding site 394012104 active site 394012105 I-site; other site 394012106 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394012107 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 394012108 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 394012109 putative FMN binding site [chemical binding]; other site 394012110 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 394012111 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 394012112 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 394012113 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394012114 Coenzyme A binding pocket [chemical binding]; other site 394012115 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394012116 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394012117 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 394012118 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394012119 Mg2+ binding site [ion binding]; other site 394012120 G-X-G motif; other site 394012121 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 394012122 anchoring element; other site 394012123 dimer interface [polypeptide binding]; other site 394012124 ATP binding site [chemical binding]; other site 394012125 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 394012126 active site 394012127 metal binding site [ion binding]; metal-binding site 394012128 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 394012129 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 394012130 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 394012131 FAD binding domain; Region: FAD_binding_4; pfam01565 394012132 Uncharacterized conserved protein [Function unknown]; Region: COG2353 394012133 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 394012134 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 394012135 triosephosphate isomerase; Provisional; Region: PRK14565 394012136 substrate binding site [chemical binding]; other site 394012137 dimer interface [polypeptide binding]; other site 394012138 catalytic triad [active] 394012139 CTP synthetase; Validated; Region: pyrG; PRK05380 394012140 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 394012141 Catalytic site [active] 394012142 active site 394012143 UTP binding site [chemical binding]; other site 394012144 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 394012145 active site 394012146 putative oxyanion hole; other site 394012147 catalytic triad [active] 394012148 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 394012149 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 394012150 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 394012151 enolase; Provisional; Region: eno; PRK00077 394012152 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 394012153 dimer interface [polypeptide binding]; other site 394012154 metal binding site [ion binding]; metal-binding site 394012155 substrate binding pocket [chemical binding]; other site 394012156 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 394012157 Septum formation initiator; Region: DivIC; pfam04977 394012158 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 394012159 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 394012160 tetramer interface [polypeptide binding]; other site 394012161 TPP-binding site [chemical binding]; other site 394012162 heterodimer interface [polypeptide binding]; other site 394012163 phosphorylation loop region [posttranslational modification] 394012164 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 394012165 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 394012166 E3 interaction surface; other site 394012167 lipoyl attachment site [posttranslational modification]; other site 394012168 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 394012169 alpha subunit interface [polypeptide binding]; other site 394012170 TPP binding site [chemical binding]; other site 394012171 heterodimer interface [polypeptide binding]; other site 394012172 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 394012173 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 394012174 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 394012175 E3 interaction surface; other site 394012176 lipoyl attachment site [posttranslational modification]; other site 394012177 e3 binding domain; Region: E3_binding; pfam02817 394012178 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 394012179 SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of...; Region: SGNH_arylesterase_like; cd01839 394012180 active site 394012181 catalytic triad [active] 394012182 oxyanion hole [active] 394012183 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 394012184 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394012185 Coenzyme A binding pocket [chemical binding]; other site 394012186 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 394012187 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 394012188 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394012189 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 394012190 Predicted membrane protein [Function unknown]; Region: COG2261 394012191 lipoyl synthase; Provisional; Region: PRK05481 394012192 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394012193 FeS/SAM binding site; other site 394012194 topology modulation protein; Reviewed; Region: PRK08118 394012195 AAA domain; Region: AAA_17; pfam13207 394012196 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 394012197 putative coenzyme Q binding site [chemical binding]; other site 394012198 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 394012199 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 394012200 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 394012201 substrate binding site; other site 394012202 dimer interface; other site 394012203 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 394012204 homotrimer interaction site [polypeptide binding]; other site 394012205 zinc binding site [ion binding]; other site 394012206 CDP-binding sites; other site 394012207 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 394012208 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 394012209 FMN binding site [chemical binding]; other site 394012210 active site 394012211 catalytic residues [active] 394012212 substrate binding site [chemical binding]; other site 394012213 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 394012214 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 394012215 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394012216 dimer interface [polypeptide binding]; other site 394012217 phosphorylation site [posttranslational modification] 394012218 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394012219 ATP binding site [chemical binding]; other site 394012220 Mg2+ binding site [ion binding]; other site 394012221 G-X-G motif; other site 394012222 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 394012223 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394012224 active site 394012225 phosphorylation site [posttranslational modification] 394012226 intermolecular recognition site; other site 394012227 dimerization interface [polypeptide binding]; other site 394012228 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394012229 Walker A motif; other site 394012230 ATP binding site [chemical binding]; other site 394012231 Walker B motif; other site 394012232 arginine finger; other site 394012233 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 394012234 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 394012235 HAMP domain; Region: HAMP; pfam00672 394012236 dimerization interface [polypeptide binding]; other site 394012237 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394012238 dimer interface [polypeptide binding]; other site 394012239 phosphorylation site [posttranslational modification] 394012240 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394012241 ATP binding site [chemical binding]; other site 394012242 Mg2+ binding site [ion binding]; other site 394012243 G-X-G motif; other site 394012244 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 394012245 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394012246 active site 394012247 phosphorylation site [posttranslational modification] 394012248 intermolecular recognition site; other site 394012249 dimerization interface [polypeptide binding]; other site 394012250 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394012251 Walker A motif; other site 394012252 ATP binding site [chemical binding]; other site 394012253 Walker B motif; other site 394012254 arginine finger; other site 394012255 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 394012256 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 394012257 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 394012258 homodimer interface [polypeptide binding]; other site 394012259 substrate-cofactor binding pocket; other site 394012260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394012261 catalytic residue [active] 394012262 bacterial Hfq-like; Region: Hfq; cd01716 394012263 hexamer interface [polypeptide binding]; other site 394012264 Sm1 motif; other site 394012265 RNA binding site [nucleotide binding]; other site 394012266 Sm2 motif; other site 394012267 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 394012268 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 394012269 HflX GTPase family; Region: HflX; cd01878 394012270 G1 box; other site 394012271 GTP/Mg2+ binding site [chemical binding]; other site 394012272 Switch I region; other site 394012273 G2 box; other site 394012274 G3 box; other site 394012275 Switch II region; other site 394012276 G4 box; other site 394012277 G5 box; other site 394012278 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 394012279 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 394012280 homodimer interface [polypeptide binding]; other site 394012281 metal binding site [ion binding]; metal-binding site 394012282 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 394012283 homodimer interface [polypeptide binding]; other site 394012284 active site 394012285 putative chemical substrate binding site [chemical binding]; other site 394012286 metal binding site [ion binding]; metal-binding site 394012287 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 394012288 nucleoside/Zn binding site; other site 394012289 dimer interface [polypeptide binding]; other site 394012290 catalytic motif [active] 394012291 siroheme synthase; Provisional; Region: cysG; PRK10637 394012292 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 394012293 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 394012294 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 394012295 active site 394012296 SAM binding site [chemical binding]; other site 394012297 homodimer interface [polypeptide binding]; other site 394012298 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 394012299 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 394012300 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 394012301 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 394012302 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 394012303 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 394012304 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 394012305 FAD binding pocket [chemical binding]; other site 394012306 FAD binding motif [chemical binding]; other site 394012307 phosphate binding motif [ion binding]; other site 394012308 beta-alpha-beta structure motif; other site 394012309 NAD binding pocket [chemical binding]; other site 394012310 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 394012311 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394012312 DNA-binding site [nucleotide binding]; DNA binding site 394012313 FCD domain; Region: FCD; pfam07729 394012314 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 394012315 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 394012316 inhibitor site; inhibition site 394012317 active site 394012318 dimer interface [polypeptide binding]; other site 394012319 catalytic residue [active] 394012320 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 394012321 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394012322 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394012323 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 394012324 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 394012325 Walker A/P-loop; other site 394012326 ATP binding site [chemical binding]; other site 394012327 Q-loop/lid; other site 394012328 ABC transporter signature motif; other site 394012329 Walker B; other site 394012330 D-loop; other site 394012331 H-loop/switch region; other site 394012332 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394012333 dimer interface [polypeptide binding]; other site 394012334 conserved gate region; other site 394012335 putative PBP binding loops; other site 394012336 ABC-ATPase subunit interface; other site 394012337 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 394012338 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 394012339 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394012340 putative PBP binding loops; other site 394012341 dimer interface [polypeptide binding]; other site 394012342 ABC-ATPase subunit interface; other site 394012343 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 394012344 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394012345 substrate binding pocket [chemical binding]; other site 394012346 membrane-bound complex binding site; other site 394012347 hinge residues; other site 394012348 cystathionine beta-lyase; Provisional; Region: PRK05967 394012349 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 394012350 homodimer interface [polypeptide binding]; other site 394012351 substrate-cofactor binding pocket; other site 394012352 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394012353 catalytic residue [active] 394012354 salicylate hydroxylase; Provisional; Region: PRK08163 394012355 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 394012356 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 394012357 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 394012358 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 394012359 serine acetyltransferase; Provisional; Region: cysE; PRK11132 394012360 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 394012361 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 394012362 trimer interface [polypeptide binding]; other site 394012363 active site 394012364 substrate binding site [chemical binding]; other site 394012365 CoA binding site [chemical binding]; other site 394012366 Phasin protein; Region: Phasin_2; pfam09361 394012367 Uncharacterized conserved protein [Function unknown]; Region: COG2127 394012368 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 394012369 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394012370 Walker A motif; other site 394012371 ATP binding site [chemical binding]; other site 394012372 Walker B motif; other site 394012373 arginine finger; other site 394012374 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394012375 Walker A motif; other site 394012376 ATP binding site [chemical binding]; other site 394012377 Walker B motif; other site 394012378 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 394012379 AzlC protein; Region: AzlC; pfam03591 394012380 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 394012381 HIT family signature motif; other site 394012382 catalytic residue [active] 394012383 Protein of unknown function, DUF482; Region: DUF482; pfam04339 394012384 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 394012385 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 394012386 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 394012387 putative active site [active] 394012388 catalytic site [active] 394012389 putative metal binding site [ion binding]; other site 394012390 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 394012391 homotrimer interaction site [polypeptide binding]; other site 394012392 putative active site [active] 394012393 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 394012394 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 394012395 rRNA interaction site [nucleotide binding]; other site 394012396 S8 interaction site; other site 394012397 putative laminin-1 binding site; other site 394012398 elongation factor Ts; Provisional; Region: tsf; PRK09377 394012399 UBA/TS-N domain; Region: UBA; pfam00627 394012400 Elongation factor TS; Region: EF_TS; pfam00889 394012401 Elongation factor TS; Region: EF_TS; pfam00889 394012402 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 394012403 putative nucleotide binding site [chemical binding]; other site 394012404 uridine monophosphate binding site [chemical binding]; other site 394012405 homohexameric interface [polypeptide binding]; other site 394012406 ribosome recycling factor; Reviewed; Region: frr; PRK00083 394012407 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 394012408 hinge region; other site 394012409 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 394012410 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 394012411 catalytic residue [active] 394012412 putative FPP diphosphate binding site; other site 394012413 putative FPP binding hydrophobic cleft; other site 394012414 dimer interface [polypeptide binding]; other site 394012415 putative IPP diphosphate binding site; other site 394012416 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 394012417 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 394012418 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 394012419 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 394012420 active site 394012421 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 394012422 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 394012423 putative substrate binding region [chemical binding]; other site 394012424 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 394012425 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 394012426 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 394012427 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 394012428 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 394012429 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 394012430 Surface antigen; Region: Bac_surface_Ag; pfam01103 394012431 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 394012432 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 394012433 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 394012434 trimer interface [polypeptide binding]; other site 394012435 active site 394012436 UDP-GlcNAc binding site [chemical binding]; other site 394012437 lipid binding site [chemical binding]; lipid-binding site 394012438 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 394012439 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 394012440 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 394012441 active site 394012442 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 394012443 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 394012444 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 394012445 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 394012446 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 394012447 dimer interface [polypeptide binding]; other site 394012448 active site 394012449 citrylCoA binding site [chemical binding]; other site 394012450 NADH binding [chemical binding]; other site 394012451 cationic pore residues; other site 394012452 oxalacetate/citrate binding site [chemical binding]; other site 394012453 coenzyme A binding site [chemical binding]; other site 394012454 catalytic triad [active] 394012455 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 394012456 Competence protein; Region: Competence; pfam03772 394012457 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 394012458 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 394012459 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 394012460 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 394012461 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394012462 S-adenosylmethionine binding site [chemical binding]; other site 394012463 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 394012464 Protein of unknown function (DUF2497); Region: DUF2497; cl11534 394012465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 394012466 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 394012467 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 394012468 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 394012469 HIGH motif; other site 394012470 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 394012471 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 394012472 active site 394012473 KMSKS motif; other site 394012474 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 394012475 tRNA binding surface [nucleotide binding]; other site 394012476 anticodon binding site; other site 394012477 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 394012478 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 394012479 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 394012480 Sel1-like repeats; Region: SEL1; smart00671 394012481 Sel1-like repeats; Region: SEL1; smart00671 394012482 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 394012483 putative catalytic site [active] 394012484 putative phosphate binding site [ion binding]; other site 394012485 active site 394012486 metal binding site A [ion binding]; metal-binding site 394012487 DNA binding site [nucleotide binding] 394012488 putative AP binding site [nucleotide binding]; other site 394012489 putative metal binding site B [ion binding]; other site 394012490 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 394012491 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 394012492 putative active site [active] 394012493 catalytic site [active] 394012494 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 394012495 putative active site [active] 394012496 catalytic site [active] 394012497 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 394012498 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 394012499 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 394012500 Zn2+ binding site [ion binding]; other site 394012501 Mg2+ binding site [ion binding]; other site 394012502 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 394012503 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 394012504 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 394012505 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 394012506 active site 394012507 HIGH motif; other site 394012508 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 394012509 KMSK motif region; other site 394012510 tRNA binding surface [nucleotide binding]; other site 394012511 DALR anticodon binding domain; Region: DALR_1; smart00836 394012512 anticodon binding site; other site 394012513 Sporulation related domain; Region: SPOR; pfam05036 394012514 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 394012515 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 394012516 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 394012517 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 394012518 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 394012519 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 394012520 Walker A/P-loop; other site 394012521 ATP binding site [chemical binding]; other site 394012522 Q-loop/lid; other site 394012523 ABC transporter signature motif; other site 394012524 Walker B; other site 394012525 D-loop; other site 394012526 H-loop/switch region; other site 394012527 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 394012528 sec-independent translocase; Provisional; Region: PRK00708 394012529 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 394012530 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 394012531 seryl-tRNA synthetase; Provisional; Region: PRK05431 394012532 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 394012533 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 394012534 dimer interface [polypeptide binding]; other site 394012535 active site 394012536 motif 1; other site 394012537 motif 2; other site 394012538 motif 3; other site 394012539 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 394012540 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 394012541 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394012542 S-adenosylmethionine binding site [chemical binding]; other site 394012543 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 394012544 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 394012545 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 394012546 Peptidase family M23; Region: Peptidase_M23; pfam01551 394012547 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 394012548 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394012549 Walker A motif; other site 394012550 ATP binding site [chemical binding]; other site 394012551 Walker B motif; other site 394012552 Preprotein translocase subunit; Region: YajC; pfam02699 394012553 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 394012554 Protein export membrane protein; Region: SecD_SecF; cl14618 394012555 Protein export membrane protein; Region: SecD_SecF; pfam02355 394012556 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 394012557 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 394012558 aspartate-rich region 1; other site 394012559 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 394012560 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394012561 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394012562 dimerization interface [polypeptide binding]; other site 394012563 EamA-like transporter family; Region: EamA; pfam00892 394012564 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 394012565 EamA-like transporter family; Region: EamA; pfam00892 394012566 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 394012567 Glucose inhibited division protein A; Region: GIDA; pfam01134 394012568 Transposase IS200 like; Region: Y1_Tnp; pfam01797 394012569 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 394012570 potential protein location (hypothetical protein NGR_c13900 [Rhizobium sp. NGR234]) that overlaps RNA (tRNA-L) 394012571 trigger factor; Provisional; Region: tig; PRK01490 394012572 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 394012573 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 394012574 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 394012575 Dienelactone hydrolase family; Region: DLH; pfam01738 394012576 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 394012577 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 394012578 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394012579 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 394012580 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 394012581 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 394012582 oligomer interface [polypeptide binding]; other site 394012583 metal binding site [ion binding]; metal-binding site 394012584 metal binding site [ion binding]; metal-binding site 394012585 putative Cl binding site [ion binding]; other site 394012586 basic sphincter; other site 394012587 hydrophobic gate; other site 394012588 periplasmic entrance; other site 394012589 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 394012590 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 394012591 hypothetical protein; Reviewed; Region: PRK00024 394012592 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 394012593 MPN+ (JAMM) motif; other site 394012594 Zinc-binding site [ion binding]; other site 394012595 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 394012596 active site 394012597 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 394012598 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 394012599 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 394012600 aminotransferase; Validated; Region: PRK09148 394012601 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394012602 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394012603 homodimer interface [polypeptide binding]; other site 394012604 catalytic residue [active] 394012605 homoserine dehydrogenase; Provisional; Region: PRK06349 394012606 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 394012607 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 394012608 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 394012609 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 394012610 DHH family; Region: DHH; pfam01368 394012611 DHHA1 domain; Region: DHHA1; pfam02272 394012612 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 394012613 Peptidase M15; Region: Peptidase_M15_3; cl01194 394012614 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394012615 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 394012616 dimer interface [polypeptide binding]; other site 394012617 active site 394012618 metal binding site [ion binding]; metal-binding site 394012619 glutathione binding site [chemical binding]; other site 394012620 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 394012621 DNA-binding site [nucleotide binding]; DNA binding site 394012622 RNA-binding motif; other site 394012623 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 394012624 DNA-binding site [nucleotide binding]; DNA binding site 394012625 RNA-binding motif; other site 394012626 Uncharacterized conserved protein [Function unknown]; Region: COG1430 394012627 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 394012628 Mechanosensitive ion channel; Region: MS_channel; pfam00924 394012629 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 394012630 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 394012631 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394012632 S-adenosylmethionine binding site [chemical binding]; other site 394012633 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 394012634 Cupin domain; Region: Cupin_2; pfam07883 394012635 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 394012636 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 394012637 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 394012638 conserved cys residue [active] 394012639 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394012640 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 394012641 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 394012642 tetramer interface [polypeptide binding]; other site 394012643 active site 394012644 Mg2+/Mn2+ binding site [ion binding]; other site 394012645 isocitrate lyase; Region: PLN02892 394012646 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394012647 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394012648 non-specific DNA binding site [nucleotide binding]; other site 394012649 salt bridge; other site 394012650 sequence-specific DNA binding site [nucleotide binding]; other site 394012651 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 394012652 Domain of unknown function (DUF955); Region: DUF955; pfam06114 394012653 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 394012654 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 394012655 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 394012656 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 394012657 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 394012658 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 394012659 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 394012660 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 394012661 hydroxyglutarate oxidase; Provisional; Region: PRK11728 394012662 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 394012663 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 394012664 conserved cys residue [active] 394012665 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394012666 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 394012667 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 394012668 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 394012669 putative active site [active] 394012670 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 394012671 domain_subunit interface; other site 394012672 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 394012673 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 394012674 active site 394012675 FMN binding site [chemical binding]; other site 394012676 substrate binding site [chemical binding]; other site 394012677 3Fe-4S cluster binding site [ion binding]; other site 394012678 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 394012679 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 394012680 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 394012681 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 394012682 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 394012683 putative active site [active] 394012684 putative substrate binding site [chemical binding]; other site 394012685 putative cosubstrate binding site; other site 394012686 catalytic site [active] 394012687 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 394012688 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394012689 non-specific DNA binding site [nucleotide binding]; other site 394012690 salt bridge; other site 394012691 sequence-specific DNA binding site [nucleotide binding]; other site 394012692 Cupin domain; Region: Cupin_2; pfam07883 394012693 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 394012694 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 394012695 Predicted permeases [General function prediction only]; Region: COG0679 394012696 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 394012697 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 394012698 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 394012699 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 394012700 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 394012701 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 394012702 NADP binding site [chemical binding]; other site 394012703 dimer interface [polypeptide binding]; other site 394012704 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 394012705 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394012706 Walker A/P-loop; other site 394012707 ATP binding site [chemical binding]; other site 394012708 Q-loop/lid; other site 394012709 ABC transporter signature motif; other site 394012710 Walker B; other site 394012711 D-loop; other site 394012712 H-loop/switch region; other site 394012713 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394012714 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394012715 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 394012716 TM-ABC transporter signature motif; other site 394012717 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394012718 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 394012719 TM-ABC transporter signature motif; other site 394012720 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 394012721 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 394012722 putative ligand binding site [chemical binding]; other site 394012723 Transcriptional regulators [Transcription]; Region: FadR; COG2186 394012724 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394012725 DNA-binding site [nucleotide binding]; DNA binding site 394012726 FCD domain; Region: FCD; pfam07729 394012727 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 394012728 Domain of unknown function DUF21; Region: DUF21; pfam01595 394012729 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 394012730 Transporter associated domain; Region: CorC_HlyC; smart01091 394012731 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 394012732 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 394012733 dimer interface [polypeptide binding]; other site 394012734 putative functional site; other site 394012735 putative MPT binding site; other site 394012736 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 394012737 trimer interface [polypeptide binding]; other site 394012738 dimer interface [polypeptide binding]; other site 394012739 putative active site [active] 394012740 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 394012741 active site 394012742 ribulose/triose binding site [chemical binding]; other site 394012743 phosphate binding site [ion binding]; other site 394012744 substrate (anthranilate) binding pocket [chemical binding]; other site 394012745 product (indole) binding pocket [chemical binding]; other site 394012746 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 394012747 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 394012748 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 394012749 SurA N-terminal domain; Region: SurA_N_3; cl07813 394012750 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 394012751 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 394012752 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 394012753 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 394012754 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 394012755 PhoU domain; Region: PhoU; pfam01895 394012756 PhoU domain; Region: PhoU; pfam01895 394012757 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 394012758 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 394012759 Substrate binding site; other site 394012760 Mg++ binding site; other site 394012761 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 394012762 active site 394012763 substrate binding site [chemical binding]; other site 394012764 CoA binding site [chemical binding]; other site 394012765 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 394012766 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 394012767 glutaminase active site [active] 394012768 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 394012769 dimer interface [polypeptide binding]; other site 394012770 active site 394012771 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 394012772 dimer interface [polypeptide binding]; other site 394012773 active site 394012774 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394012775 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 394012776 Coenzyme A binding pocket [chemical binding]; other site 394012777 Uncharacterized conserved protein [Function unknown]; Region: COG2928 394012778 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 394012779 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 394012780 generic binding surface II; other site 394012781 ssDNA binding site; other site 394012782 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 394012783 ATP binding site [chemical binding]; other site 394012784 putative Mg++ binding site [ion binding]; other site 394012785 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394012786 nucleotide binding region [chemical binding]; other site 394012787 ATP-binding site [chemical binding]; other site 394012788 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 394012789 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 394012790 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 394012791 ATP binding site [chemical binding]; other site 394012792 putative Mg++ binding site [ion binding]; other site 394012793 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394012794 nucleotide binding region [chemical binding]; other site 394012795 ATP-binding site [chemical binding]; other site 394012796 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 394012797 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 394012798 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 394012799 catalytic residues [active] 394012800 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 394012801 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 394012802 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 394012803 Uncharacterized conserved protein [Function unknown]; Region: COG3785 394012804 glutamine synthetase; Provisional; Region: glnA; PRK09469 394012805 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 394012806 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 394012807 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 394012808 Nitrogen regulatory protein P-II; Region: P-II; smart00938 394012809 putative carbohydrate kinase; Provisional; Region: PRK10565 394012810 Uncharacterized conserved protein [Function unknown]; Region: COG0062 394012811 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 394012812 putative substrate binding site [chemical binding]; other site 394012813 putative ATP binding site [chemical binding]; other site 394012814 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 394012815 active site 394012816 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 394012817 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 394012818 putative MPT binding site; other site 394012819 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 394012820 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 394012821 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 394012822 Transposase domain (DUF772); Region: DUF772; pfam05598 394012823 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 394012824 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 394012825 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 394012826 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 394012827 threonine dehydratase; Validated; Region: PRK08639 394012828 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 394012829 tetramer interface [polypeptide binding]; other site 394012830 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394012831 catalytic residue [active] 394012832 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 394012833 Uncharacterized conserved protein [Function unknown]; Region: COG5453 394012834 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 394012835 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 394012836 active site 394012837 metal binding site [ion binding]; metal-binding site 394012838 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 394012839 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394012840 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394012841 metal binding site [ion binding]; metal-binding site 394012842 active site 394012843 I-site; other site 394012844 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394012845 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394012846 putative DNA binding site [nucleotide binding]; other site 394012847 putative Zn2+ binding site [ion binding]; other site 394012848 AsnC family; Region: AsnC_trans_reg; pfam01037 394012849 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 394012850 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 394012851 hexamer interface [polypeptide binding]; other site 394012852 ligand binding site [chemical binding]; other site 394012853 putative active site [active] 394012854 NAD(P) binding site [chemical binding]; other site 394012855 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 394012856 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 394012857 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 394012858 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 394012859 active site residue [active] 394012860 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 394012861 active site residue [active] 394012862 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 394012863 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 394012864 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 394012865 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 394012866 dimer interface [polypeptide binding]; other site 394012867 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394012868 catalytic residue [active] 394012869 short chain dehydrogenase; Provisional; Region: PRK06101 394012870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394012871 NAD(P) binding site [chemical binding]; other site 394012872 active site 394012873 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 394012874 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 394012875 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 394012876 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 394012877 LexA repressor; Validated; Region: PRK00215 394012878 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 394012879 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 394012880 Catalytic site [active] 394012881 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 394012882 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 394012883 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_8; cd12167 394012884 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 394012885 putative ligand binding site [chemical binding]; other site 394012886 putative NAD binding site [chemical binding]; other site 394012887 catalytic site [active] 394012888 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4289 394012889 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394012890 DNA binding site [nucleotide binding] 394012891 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394012892 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 394012893 ligand binding site [chemical binding]; other site 394012894 dimerization interface [polypeptide binding]; other site 394012895 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394012896 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394012897 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 394012898 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 394012899 Predicted integral membrane protein [Function unknown]; Region: COG5473 394012900 PilZ domain; Region: PilZ; pfam07238 394012901 adenylosuccinate lyase; Provisional; Region: PRK07492 394012902 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 394012903 tetramer interface [polypeptide binding]; other site 394012904 active site 394012905 Predicted secreted protein [Function unknown]; Region: COG5497 394012906 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 394012907 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 394012908 substrate binding site [chemical binding]; other site 394012909 hexamer interface [polypeptide binding]; other site 394012910 metal binding site [ion binding]; metal-binding site 394012911 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 394012912 putative active site pocket [active] 394012913 cleavage site 394012914 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group represents...; Region: DmpA_OAT; cl00603 394012915 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 394012916 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 394012917 ligand binding site [chemical binding]; other site 394012918 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 394012919 MoxR-like ATPases [General function prediction only]; Region: COG0714 394012920 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394012921 Walker A motif; other site 394012922 ATP binding site [chemical binding]; other site 394012923 Walker B motif; other site 394012924 arginine finger; other site 394012925 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 394012926 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 394012927 metal ion-dependent adhesion site (MIDAS); other site 394012928 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 394012929 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 394012930 XdhC Rossmann domain; Region: XdhC_C; pfam13478 394012931 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 394012932 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 394012933 putative MPT binding site; other site 394012934 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 394012935 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 394012936 Ligand binding site; other site 394012937 metal-binding site 394012938 TfoX N-terminal domain; Region: TfoX_N; pfam04993 394012939 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 394012940 nudix motif; other site 394012941 helicase 45; Provisional; Region: PTZ00424 394012942 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 394012943 ATP binding site [chemical binding]; other site 394012944 Mg++ binding site [ion binding]; other site 394012945 motif III; other site 394012946 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394012947 nucleotide binding region [chemical binding]; other site 394012948 ATP-binding site [chemical binding]; other site 394012949 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 394012950 Peptidase family M23; Region: Peptidase_M23; pfam01551 394012951 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 394012952 dinuclear metal binding motif [ion binding]; other site 394012953 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 394012954 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 394012955 catalytic triad [active] 394012956 Protein of unknown function; Region: DUF3971; pfam13116 394012957 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 394012958 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 394012959 active site 394012960 HIGH motif; other site 394012961 dimer interface [polypeptide binding]; other site 394012962 KMSKS motif; other site 394012963 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 394012964 RNA binding surface [nucleotide binding]; other site 394012965 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 394012966 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394012967 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394012968 metal binding site [ion binding]; metal-binding site 394012969 active site 394012970 I-site; other site 394012971 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 394012972 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 394012973 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 394012974 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394012975 catalytic residue [active] 394012976 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 394012977 putative ABC transporter; Region: ycf24; CHL00085 394012978 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 394012979 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 394012980 Walker A/P-loop; other site 394012981 ATP binding site [chemical binding]; other site 394012982 Q-loop/lid; other site 394012983 ABC transporter signature motif; other site 394012984 Walker B; other site 394012985 D-loop; other site 394012986 H-loop/switch region; other site 394012987 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 394012988 FeS assembly protein SufD; Region: sufD; TIGR01981 394012989 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 394012990 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 394012991 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394012992 catalytic residue [active] 394012993 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 394012994 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 394012995 glycine dehydrogenase; Provisional; Region: PRK05367 394012996 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 394012997 tetramer interface [polypeptide binding]; other site 394012998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394012999 catalytic residue [active] 394013000 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 394013001 tetramer interface [polypeptide binding]; other site 394013002 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394013003 catalytic residue [active] 394013004 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 394013005 lipoyl attachment site [posttranslational modification]; other site 394013006 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 394013007 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 394013008 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 394013009 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 394013010 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394013011 Coenzyme A binding pocket [chemical binding]; other site 394013012 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 394013013 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 394013014 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 394013015 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 394013016 active site 394013017 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 394013018 TSCPD domain; Region: TSCPD; pfam12637 394013019 Uncharacterized conserved protein [Function unknown]; Region: COG1801 394013020 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 394013021 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 394013022 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 394013023 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 394013024 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 394013025 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 394013026 dimer interface [polypeptide binding]; other site 394013027 ssDNA binding site [nucleotide binding]; other site 394013028 tetramer (dimer of dimers) interface [polypeptide binding]; other site 394013029 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 394013030 DNA gyrase subunit A; Validated; Region: PRK05560 394013031 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 394013032 CAP-like domain; other site 394013033 active site 394013034 primary dimer interface [polypeptide binding]; other site 394013035 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 394013036 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 394013037 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 394013038 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 394013039 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 394013040 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 394013041 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 394013042 N-acetyl-D-glucosamine binding site [chemical binding]; other site 394013043 catalytic residue [active] 394013044 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394013045 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394013046 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 394013047 putative effector binding pocket; other site 394013048 dimerization interface [polypeptide binding]; other site 394013049 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 394013050 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 394013051 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394013052 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394013053 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394013054 putative DNA binding site [nucleotide binding]; other site 394013055 putative Zn2+ binding site [ion binding]; other site 394013056 AsnC family; Region: AsnC_trans_reg; pfam01037 394013057 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 394013058 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 394013059 putative metal binding site; other site 394013060 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394013061 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 394013062 putative ADP-binding pocket [chemical binding]; other site 394013063 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394013064 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 394013065 putative ADP-binding pocket [chemical binding]; other site 394013066 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 394013067 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 394013068 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 394013069 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 394013070 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 394013071 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394013072 Major Facilitator Superfamily; Region: MFS_1; pfam07690 394013073 putative substrate translocation pore; other site 394013074 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 394013075 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 394013076 ATP-grasp domain; Region: ATP-grasp_4; cl17255 394013077 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 394013078 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 394013079 ATP-grasp domain; Region: ATP-grasp_4; cl17255 394013080 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 394013081 IMP binding site; other site 394013082 dimer interface [polypeptide binding]; other site 394013083 partial ornithine binding site; other site 394013084 Predicted metalloprotease [General function prediction only]; Region: COG2321 394013085 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 394013086 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394013087 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394013088 active site 394013089 catalytic tetrad [active] 394013090 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394013091 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394013092 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 394013093 putative effector binding pocket; other site 394013094 putative dimerization interface [polypeptide binding]; other site 394013095 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394013096 Major Facilitator Superfamily; Region: MFS_1; pfam07690 394013097 putative substrate translocation pore; other site 394013098 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 394013099 multidrug efflux protein; Reviewed; Region: PRK01766 394013100 cation binding site [ion binding]; other site 394013101 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 394013102 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 394013103 active site 394013104 (T/H)XGH motif; other site 394013105 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 394013106 active site 394013107 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 394013108 active site 394013109 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 394013110 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 394013111 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 394013112 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 394013113 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 394013114 classical (c) SDRs; Region: SDR_c; cd05233 394013115 NAD(P) binding site [chemical binding]; other site 394013116 active site 394013117 SEC-C motif; Region: SEC-C; pfam02810 394013118 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 394013119 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 394013120 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 394013121 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 394013122 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 394013123 classical (c) SDRs; Region: SDR_c; cd05233 394013124 NAD(P) binding site [chemical binding]; other site 394013125 active site 394013126 Major Facilitator Superfamily; Region: MFS_1; pfam07690 394013127 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394013128 putative substrate translocation pore; other site 394013129 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 394013130 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394013131 DNA binding site [nucleotide binding] 394013132 Predicted integral membrane protein [Function unknown]; Region: COG5616 394013133 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 394013134 TPR motif; other site 394013135 binding surface 394013136 Winged helix-turn helix; Region: HTH_29; pfam13551 394013137 Homeodomain-like domain; Region: HTH_32; pfam13565 394013138 Integrase core domain; Region: rve; pfam00665 394013139 Helix-turn-helix domain; Region: HTH_28; pfam13518 394013140 Winged helix-turn helix; Region: HTH_29; pfam13551 394013141 Homeodomain-like domain; Region: HTH_32; pfam13565 394013142 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 394013143 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 394013144 catalytic residues [active] 394013145 catalytic nucleophile [active] 394013146 Recombinase; Region: Recombinase; pfam07508 394013147 Helix-turn-helix domain; Region: HTH_28; pfam13518 394013148 Winged helix-turn helix; Region: HTH_29; pfam13551 394013149 Homeodomain-like domain; Region: HTH_32; pfam13565 394013150 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 394013151 putative hydrolase; Provisional; Region: PRK02113 394013152 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 394013153 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 394013154 active site 394013155 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 394013156 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 394013157 active site 394013158 HIGH motif; other site 394013159 KMSKS motif; other site 394013160 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 394013161 tRNA binding surface [nucleotide binding]; other site 394013162 anticodon binding site; other site 394013163 DNA polymerase III subunit delta'; Validated; Region: PRK09112 394013164 AAA ATPase domain; Region: AAA_16; pfam13191 394013165 DNA polymerase III subunit delta'; Validated; Region: PRK08485 394013166 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 394013167 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 394013168 TMP-binding site; other site 394013169 ATP-binding site [chemical binding]; other site 394013170 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 394013171 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 394013172 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA; cl01007 394013173 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 394013174 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 394013175 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 394013176 potential frameshift: common BLAST hit: gi|209546878|ref|YP_002278796.1| oxidoreductase molybdopterin binding 394013177 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 394013178 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 394013179 Moco binding site; other site 394013180 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 394013181 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 394013182 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 394013183 RNA polymerase sigma factor; Provisional; Region: PRK12536 394013184 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394013185 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 394013186 DNA binding residues [nucleotide binding] 394013187 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 394013188 Uncharacterized conserved protein [Function unknown]; Region: COG5467 394013189 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 394013190 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 394013191 ATP binding site [chemical binding]; other site 394013192 active site 394013193 substrate binding site [chemical binding]; other site 394013194 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 394013195 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 394013196 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 394013197 putative active site [active] 394013198 catalytic triad [active] 394013199 Uncharacterized conserved protein [Function unknown]; Region: COG5470 394013200 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 394013201 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394013202 DNA-binding site [nucleotide binding]; DNA binding site 394013203 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394013204 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394013205 homodimer interface [polypeptide binding]; other site 394013206 catalytic residue [active] 394013207 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 394013208 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 394013209 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 394013210 dimerization interface [polypeptide binding]; other site 394013211 ATP binding site [chemical binding]; other site 394013212 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 394013213 dimerization interface [polypeptide binding]; other site 394013214 ATP binding site [chemical binding]; other site 394013215 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 394013216 putative GSH binding site [chemical binding]; other site 394013217 catalytic residues [active] 394013218 Major Facilitator Superfamily; Region: MFS_1; pfam07690 394013219 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394013220 putative substrate translocation pore; other site 394013221 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 394013222 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394013223 putative substrate translocation pore; other site 394013224 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 394013225 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 394013226 active site 394013227 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 394013228 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 394013229 Ligand Binding Site [chemical binding]; other site 394013230 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 394013231 glutaminase; Provisional; Region: PRK00971 394013232 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 394013233 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 394013234 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 394013235 RNA binding surface [nucleotide binding]; other site 394013236 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 394013237 MarR family; Region: MarR_2; pfam12802 394013238 Cupin domain; Region: Cupin_2; pfam07883 394013239 Domain of unknown function DUF87; Region: DUF87; pfam01935 394013240 HerA helicase [Replication, recombination, and repair]; Region: COG0433 394013241 glutamate racemase; Provisional; Region: PRK00865 394013242 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 394013243 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 394013244 isocitrate dehydrogenase; Validated; Region: PRK08299 394013245 Helix-turn-helix domain; Region: HTH_18; pfam12833 394013246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394013247 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 394013248 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 394013249 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 394013250 Sulfate transporter family; Region: Sulfate_transp; pfam00916 394013251 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 394013252 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 394013253 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 394013254 motif 1; other site 394013255 active site 394013256 motif 2; other site 394013257 motif 3; other site 394013258 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 394013259 recombinase A; Provisional; Region: recA; PRK09354 394013260 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 394013261 hexamer interface [polypeptide binding]; other site 394013262 Walker A motif; other site 394013263 ATP binding site [chemical binding]; other site 394013264 Walker B motif; other site 394013265 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 394013266 substrate binding site [chemical binding]; other site 394013267 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 394013268 ATP binding site [chemical binding]; other site 394013269 Uncharacterized enzyme involved in pigment biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IndA; COG2313 394013270 PAS domain S-box; Region: sensory_box; TIGR00229 394013271 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 394013272 PAS domain; Region: PAS; smart00091 394013273 putative active site [active] 394013274 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394013275 heme pocket [chemical binding]; other site 394013276 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394013277 dimer interface [polypeptide binding]; other site 394013278 phosphorylation site [posttranslational modification] 394013279 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394013280 ATP binding site [chemical binding]; other site 394013281 Mg2+ binding site [ion binding]; other site 394013282 G-X-G motif; other site 394013283 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394013284 Response regulator receiver domain; Region: Response_reg; pfam00072 394013285 active site 394013286 phosphorylation site [posttranslational modification] 394013287 intermolecular recognition site; other site 394013288 dimerization interface [polypeptide binding]; other site 394013289 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 394013290 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 394013291 catalytic core [active] 394013292 Predicted ATPase [General function prediction only]; Region: COG3106 394013293 Predicted membrane protein [Function unknown]; Region: COG3768 394013294 Domain of unknown function (DUF697); Region: DUF697; cl12064 394013295 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 394013296 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 394013297 catalytic center binding site [active] 394013298 ATP binding site [chemical binding]; other site 394013299 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 394013300 homooctamer interface [polypeptide binding]; other site 394013301 active site 394013302 dihydropteroate synthase; Region: DHPS; TIGR01496 394013303 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 394013304 substrate binding pocket [chemical binding]; other site 394013305 dimer interface [polypeptide binding]; other site 394013306 inhibitor binding site; inhibition site 394013307 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5661 394013308 integron integrase; Region: integrase_gron; TIGR02249 394013309 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 394013310 Int/Topo IB signature motif; other site 394013311 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 394013312 Putative transposase; Region: Y2_Tnp; pfam04986 394013313 DDE superfamily endonuclease; Region: DDE_3; pfam13358 394013314 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 394013315 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 394013316 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 394013317 catalytic loop [active] 394013318 iron binding site [ion binding]; other site 394013319 glutathionine S-transferase; Provisional; Region: PRK10542 394013320 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 394013321 C-terminal domain interface [polypeptide binding]; other site 394013322 GSH binding site (G-site) [chemical binding]; other site 394013323 dimer interface [polypeptide binding]; other site 394013324 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 394013325 dimer interface [polypeptide binding]; other site 394013326 N-terminal domain interface [polypeptide binding]; other site 394013327 substrate binding pocket (H-site) [chemical binding]; other site 394013328 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 394013329 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 394013330 TAP-like protein; Region: Abhydrolase_4; pfam08386 394013331 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 394013332 cytochrome b; Provisional; Region: CYTB; MTH00191 394013333 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 394013334 Qi binding site; other site 394013335 intrachain domain interface; other site 394013336 interchain domain interface [polypeptide binding]; other site 394013337 heme bH binding site [chemical binding]; other site 394013338 heme bL binding site [chemical binding]; other site 394013339 Qo binding site; other site 394013340 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 394013341 interchain domain interface [polypeptide binding]; other site 394013342 intrachain domain interface; other site 394013343 Qi binding site; other site 394013344 Qo binding site; other site 394013345 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 394013346 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 394013347 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 394013348 [2Fe-2S] cluster binding site [ion binding]; other site 394013349 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 394013350 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 394013351 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 394013352 Walker A/P-loop; other site 394013353 ATP binding site [chemical binding]; other site 394013354 Q-loop/lid; other site 394013355 ABC transporter signature motif; other site 394013356 Walker B; other site 394013357 D-loop; other site 394013358 H-loop/switch region; other site 394013359 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 394013360 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 394013361 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394013362 Walker A/P-loop; other site 394013363 ATP binding site [chemical binding]; other site 394013364 Q-loop/lid; other site 394013365 ABC transporter signature motif; other site 394013366 Walker B; other site 394013367 D-loop; other site 394013368 H-loop/switch region; other site 394013369 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 394013370 Predicted flavoprotein [General function prediction only]; Region: COG0431 394013371 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 394013372 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 394013373 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 394013374 DNA binding residues [nucleotide binding] 394013375 dimer interface [polypeptide binding]; other site 394013376 [2Fe-2S] cluster binding site [ion binding]; other site 394013377 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 394013378 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 394013379 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 394013380 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 394013381 mce related protein; Region: MCE; pfam02470 394013382 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 394013383 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 394013384 Walker A/P-loop; other site 394013385 ATP binding site [chemical binding]; other site 394013386 Q-loop/lid; other site 394013387 ABC transporter signature motif; other site 394013388 Walker B; other site 394013389 D-loop; other site 394013390 H-loop/switch region; other site 394013391 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 394013392 Permease; Region: Permease; pfam02405 394013393 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 394013394 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 394013395 active site 394013396 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394013397 putative substrate translocation pore; other site 394013398 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 394013399 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 394013400 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 394013401 putative active site [active] 394013402 putative metal binding site [ion binding]; other site 394013403 malic enzyme; Reviewed; Region: PRK12862 394013404 Malic enzyme, N-terminal domain; Region: malic; pfam00390 394013405 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 394013406 putative NAD(P) binding site [chemical binding]; other site 394013407 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 394013408 Autoinducer binding domain; Region: Autoind_bind; pfam03472 394013409 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394013410 DNA binding residues [nucleotide binding] 394013411 dimerization interface [polypeptide binding]; other site 394013412 N-acyl-L-homoserine lactone synthetase [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: LasI; COG3916 394013413 Protein of unknown function (DUF2865); Region: DUF2865; pfam11064 394013414 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 394013415 putative FMN binding site [chemical binding]; other site 394013416 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 394013417 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 394013418 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 394013419 NAD synthetase; Provisional; Region: PRK13981 394013420 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 394013421 multimer interface [polypeptide binding]; other site 394013422 active site 394013423 catalytic triad [active] 394013424 protein interface 1 [polypeptide binding]; other site 394013425 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 394013426 homodimer interface [polypeptide binding]; other site 394013427 NAD binding pocket [chemical binding]; other site 394013428 ATP binding pocket [chemical binding]; other site 394013429 Mg binding site [ion binding]; other site 394013430 active-site loop [active] 394013431 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 394013432 Sulfatase; Region: Sulfatase; pfam00884 394013433 Uncharacterized conserved protein [Function unknown]; Region: COG3791 394013434 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 394013435 glutathione reductase; Validated; Region: PRK06116 394013436 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394013437 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 394013438 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 394013439 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 394013440 tetramer (dimer of dimers) interface [polypeptide binding]; other site 394013441 active site 394013442 dimer interface [polypeptide binding]; other site 394013443 phosphoglycolate phosphatase; Provisional; Region: PRK13222 394013444 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 394013445 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394013446 motif II; other site 394013447 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 394013448 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 394013449 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 394013450 fumarate hydratase; Reviewed; Region: fumC; PRK00485 394013451 Class II fumarases; Region: Fumarase_classII; cd01362 394013452 active site 394013453 tetramer interface [polypeptide binding]; other site 394013454 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394013455 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394013456 metal binding site [ion binding]; metal-binding site 394013457 active site 394013458 I-site; other site 394013459 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 394013460 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 394013461 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 394013462 Transcriptional regulators [Transcription]; Region: MarR; COG1846 394013463 MarR family; Region: MarR_2; pfam12802 394013464 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 394013465 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 394013466 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394013467 FeS/SAM binding site; other site 394013468 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 394013469 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 394013470 dimerization interface [polypeptide binding]; other site 394013471 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394013472 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394013473 dimer interface [polypeptide binding]; other site 394013474 putative CheW interface [polypeptide binding]; other site 394013475 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 394013476 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 394013477 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 394013478 GTP binding site; other site 394013479 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 394013480 Walker A motif; other site 394013481 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 394013482 Sel1-like repeats; Region: SEL1; smart00671 394013483 Sel1-like repeats; Region: SEL1; smart00671 394013484 Sel1-like repeats; Region: SEL1; smart00671 394013485 Sel1-like repeats; Region: SEL1; smart00671 394013486 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 394013487 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 394013488 ligand binding site [chemical binding]; other site 394013489 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 394013490 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394013491 substrate binding pocket [chemical binding]; other site 394013492 membrane-bound complex binding site; other site 394013493 hinge residues; other site 394013494 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 394013495 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394013496 dimer interface [polypeptide binding]; other site 394013497 conserved gate region; other site 394013498 putative PBP binding loops; other site 394013499 ABC-ATPase subunit interface; other site 394013500 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 394013501 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394013502 dimer interface [polypeptide binding]; other site 394013503 conserved gate region; other site 394013504 putative PBP binding loops; other site 394013505 ABC-ATPase subunit interface; other site 394013506 Usg protein, probable subunit of phosphoribosylanthranilate isomerase [Amino acid transport and metabolism]; Region: COG5425 394013507 Predicted integral membrane protein [Function unknown]; Region: COG5530 394013508 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 394013509 Tetratricopeptide repeat; Region: TPR_1; pfam00515 394013510 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394013511 S-adenosylmethionine binding site [chemical binding]; other site 394013512 Predicted membrane protein [Function unknown]; Region: COG3174 394013513 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 394013514 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 394013515 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 394013516 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 394013517 A new structural DNA glycosylase; Region: AlkD_like; cd06561 394013518 active site 394013519 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394013520 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394013521 putative DNA binding site [nucleotide binding]; other site 394013522 putative Zn2+ binding site [ion binding]; other site 394013523 AsnC family; Region: AsnC_trans_reg; pfam01037 394013524 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 394013525 putative uracil binding site [chemical binding]; other site 394013526 putative active site [active] 394013527 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 394013528 Staphylococcal nuclease homologues; Region: SNc; smart00318 394013529 Catalytic site; other site 394013530 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394013531 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394013532 dimer interface [polypeptide binding]; other site 394013533 phosphorylation site [posttranslational modification] 394013534 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394013535 ATP binding site [chemical binding]; other site 394013536 Mg2+ binding site [ion binding]; other site 394013537 G-X-G motif; other site 394013538 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 394013539 cobalamin synthase; Reviewed; Region: cobS; PRK00235 394013540 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 394013541 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 394013542 putative dimer interface [polypeptide binding]; other site 394013543 active site pocket [active] 394013544 putative cataytic base [active] 394013545 Predicted aspartyl protease [General function prediction only]; Region: COG3577 394013546 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 394013547 catalytic motif [active] 394013548 Catalytic residue [active] 394013549 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394013550 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394013551 TM-ABC transporter signature motif; other site 394013552 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394013553 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394013554 Walker A/P-loop; other site 394013555 ATP binding site [chemical binding]; other site 394013556 Q-loop/lid; other site 394013557 ABC transporter signature motif; other site 394013558 Walker B; other site 394013559 D-loop; other site 394013560 H-loop/switch region; other site 394013561 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394013562 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 394013563 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 394013564 ligand binding site [chemical binding]; other site 394013565 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394013566 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cl17402 394013567 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 394013568 dimerization interface [polypeptide binding]; other site 394013569 ligand binding site [chemical binding]; other site 394013570 ABC-2 type transporter; Region: ABC2_membrane; cl17235 394013571 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 394013572 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 394013573 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 394013574 Walker A/P-loop; other site 394013575 ATP binding site [chemical binding]; other site 394013576 Q-loop/lid; other site 394013577 ABC transporter signature motif; other site 394013578 Walker B; other site 394013579 D-loop; other site 394013580 H-loop/switch region; other site 394013581 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394013582 dimerization interface [polypeptide binding]; other site 394013583 putative DNA binding site [nucleotide binding]; other site 394013584 putative Zn2+ binding site [ion binding]; other site 394013585 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 394013586 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 394013587 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 394013588 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 394013589 Cache domain; Region: Cache_2; pfam08269 394013590 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 394013591 dimerization interface [polypeptide binding]; other site 394013592 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394013593 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394013594 dimer interface [polypeptide binding]; other site 394013595 putative CheW interface [polypeptide binding]; other site 394013596 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 394013597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3169 394013598 excinuclease ABC subunit B; Provisional; Region: PRK05298 394013599 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 394013600 ATP binding site [chemical binding]; other site 394013601 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394013602 nucleotide binding region [chemical binding]; other site 394013603 ATP-binding site [chemical binding]; other site 394013604 Ultra-violet resistance protein B; Region: UvrB; pfam12344 394013605 UvrB/uvrC motif; Region: UVR; pfam02151 394013606 DnaJ domain; Region: DnaJ; pfam00226 394013607 HSP70 interaction site [polypeptide binding]; other site 394013608 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 394013609 DNA-binding site [nucleotide binding]; DNA binding site 394013610 RNA-binding motif; other site 394013611 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 394013612 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 394013613 FMN binding site [chemical binding]; other site 394013614 active site 394013615 catalytic residues [active] 394013616 substrate binding site [chemical binding]; other site 394013617 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 394013618 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 394013619 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 394013620 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 394013621 trimer interface [polypeptide binding]; other site 394013622 putative metal binding site [ion binding]; other site 394013623 Phytochelatin synthase; Region: Phytochelatin; pfam05023 394013624 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 394013625 metal binding site 2 [ion binding]; metal-binding site 394013626 putative DNA binding helix; other site 394013627 metal binding site 1 [ion binding]; metal-binding site 394013628 dimer interface [polypeptide binding]; other site 394013629 structural Zn2+ binding site [ion binding]; other site 394013630 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 394013631 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 394013632 dimer interface [polypeptide binding]; other site 394013633 putative PBP binding regions; other site 394013634 ABC-ATPase subunit interface; other site 394013635 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 394013636 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 394013637 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 394013638 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 394013639 metal binding site [ion binding]; metal-binding site 394013640 Predicted integral membrane protein [Function unknown]; Region: COG5455 394013641 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 394013642 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 394013643 inhibitor binding site; inhibition site 394013644 active site 394013645 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 394013646 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 394013647 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 394013648 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 394013649 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 394013650 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 394013651 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 394013652 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 394013653 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 394013654 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 394013655 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 394013656 Transposase; Region: HTH_Tnp_1; pfam01527 394013657 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 394013658 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 394013659 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394013660 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394013661 active site 394013662 catalytic tetrad [active] 394013663 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394013664 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394013665 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 394013666 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 394013667 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 394013668 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 394013669 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 394013670 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394013671 Walker A/P-loop; other site 394013672 ATP binding site [chemical binding]; other site 394013673 Q-loop/lid; other site 394013674 ABC transporter signature motif; other site 394013675 Walker B; other site 394013676 D-loop; other site 394013677 H-loop/switch region; other site 394013678 TOBE domain; Region: TOBE_2; pfam08402 394013679 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394013680 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394013681 dimer interface [polypeptide binding]; other site 394013682 conserved gate region; other site 394013683 putative PBP binding loops; other site 394013684 ABC-ATPase subunit interface; other site 394013685 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394013686 dimer interface [polypeptide binding]; other site 394013687 conserved gate region; other site 394013688 putative PBP binding loops; other site 394013689 ABC-ATPase subunit interface; other site 394013690 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394013691 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394013692 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394013693 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394013694 DNA binding site [nucleotide binding] 394013695 domain linker motif; other site 394013696 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 394013697 ligand binding site [chemical binding]; other site 394013698 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 394013699 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 394013700 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 394013701 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 394013702 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 394013703 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 394013704 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 394013705 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 394013706 metal-binding site [ion binding] 394013707 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 394013708 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 394013709 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 394013710 FixH; Region: FixH; pfam05751 394013711 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 394013712 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 394013713 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394013714 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 394013715 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 394013716 Cytochrome c; Region: Cytochrom_C; pfam00034 394013717 Cytochrome c; Region: Cytochrom_C; pfam00034 394013718 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 394013719 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 394013720 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 394013721 Low-spin heme binding site [chemical binding]; other site 394013722 Putative water exit pathway; other site 394013723 Binuclear center (active site) [active] 394013724 Putative proton exit pathway; other site 394013725 Transposase IS200 like; Region: Y1_Tnp; pfam01797 394013726 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 394013727 PAS fold; Region: PAS_4; pfam08448 394013728 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 394013729 putative acyl-acceptor binding pocket; other site 394013730 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 394013731 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 394013732 NAD(P) binding site [chemical binding]; other site 394013733 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 394013734 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 394013735 dimer interface [polypeptide binding]; other site 394013736 active site 394013737 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 394013738 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 394013739 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 394013740 active site 394013741 active site 394013742 3-hydroxymyristoyl/3-hydroxydecanoyl-(acyl carrier protein) dehydratases [Lipid metabolism]; Region: FabA; COG0764 394013743 active site 2 [active] 394013744 active site 1 [active] 394013745 acyl carrier protein; Provisional; Region: PRK06508 394013746 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 394013747 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 394013748 ligand binding site [chemical binding]; other site 394013749 flexible hinge region; other site 394013750 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 394013751 putative switch regulator; other site 394013752 non-specific DNA interactions [nucleotide binding]; other site 394013753 DNA binding site [nucleotide binding] 394013754 sequence specific DNA binding site [nucleotide binding]; other site 394013755 putative cAMP binding site [chemical binding]; other site 394013756 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 394013757 catalytic site [active] 394013758 active site 394013759 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 394013760 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 394013761 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394013762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394013763 homodimer interface [polypeptide binding]; other site 394013764 catalytic residue [active] 394013765 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 394013766 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 394013767 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 394013768 active site 394013769 SAM binding site [chemical binding]; other site 394013770 homodimer interface [polypeptide binding]; other site 394013771 potential protein location (hypothetical protein) that overlaps protein (CobE protein) 394013772 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 394013773 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 394013774 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 394013775 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 394013776 homodimer interface [polypeptide binding]; other site 394013777 Walker A motif; other site 394013778 ATP binding site [chemical binding]; other site 394013779 hydroxycobalamin binding site [chemical binding]; other site 394013780 Walker B motif; other site 394013781 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 394013782 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 394013783 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 394013784 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 394013785 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 394013786 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 394013787 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 394013788 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 394013789 homotrimer interface [polypeptide binding]; other site 394013790 Walker A motif; other site 394013791 GTP binding site [chemical binding]; other site 394013792 Walker B motif; other site 394013793 FecR protein; Region: FecR; pfam04773 394013794 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 394013795 CHASE2 domain; Region: CHASE2; pfam05226 394013796 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394013797 cyclase homology domain; Region: CHD; cd07302 394013798 nucleotidyl binding site; other site 394013799 metal binding site [ion binding]; metal-binding site 394013800 dimer interface [polypeptide binding]; other site 394013801 cobyric acid synthase; Provisional; Region: PRK00784 394013802 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 394013803 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 394013804 catalytic triad [active] 394013805 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 394013806 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 394013807 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 394013808 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 394013809 Walker A/P-loop; other site 394013810 ATP binding site [chemical binding]; other site 394013811 Q-loop/lid; other site 394013812 ABC transporter signature motif; other site 394013813 Walker B; other site 394013814 D-loop; other site 394013815 H-loop/switch region; other site 394013816 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 394013817 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 394013818 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 394013819 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394013820 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394013821 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394013822 dimerization interface [polypeptide binding]; other site 394013823 methionine synthase I; Validated; Region: PRK07534 394013824 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 394013825 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 394013826 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394013827 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394013828 von Willebrand factor; Region: vWF_A; pfam12450 394013829 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 394013830 VWA subgroup: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_subgroup; cd01465 394013831 metal ion-dependent adhesion site (MIDAS); other site 394013832 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 394013833 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 394013834 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394013835 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 394013836 DNA binding residues [nucleotide binding] 394013837 Predicted periplasmic protein [Function unknown]; Region: COG3698 394013838 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 394013839 Methylmalonic aciduria and homocystinuria type C protein and similar proteins; Region: MMACHC-like; cd12959 394013840 Ferredoxin [Energy production and conversion]; Region: NapF; COG1145 394013841 Trimethylamine methyltransferase (MTTB); Region: MTTB; pfam06253 394013842 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 394013843 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 394013844 B12 binding site [chemical binding]; other site 394013845 cobalt ligand [ion binding]; other site 394013846 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 394013847 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_3; cd08653 394013848 putative active site [active] 394013849 putative cosubstrate binding site; other site 394013850 putative substrate binding site [chemical binding]; other site 394013851 catalytic site [active] 394013852 BA14K-like protein; Region: BA14K; pfam07886 394013853 Virulence factor; Region: Virulence_fact; pfam13769 394013854 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 394013855 FAD binding site [chemical binding]; other site 394013856 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 394013857 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 394013858 substrate binding pocket [chemical binding]; other site 394013859 dimer interface [polypeptide binding]; other site 394013860 inhibitor binding site; inhibition site 394013861 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 394013862 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 394013863 catalytic loop [active] 394013864 iron binding site [ion binding]; other site 394013865 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394013866 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394013867 putative DNA binding site [nucleotide binding]; other site 394013868 dimerization interface [polypeptide binding]; other site 394013869 putative Zn2+ binding site [ion binding]; other site 394013870 AsnC family; Region: AsnC_trans_reg; pfam01037 394013871 diaminopropionate ammonia-lyase; Provisional; Region: PRK08206 394013872 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394013873 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 394013874 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 394013875 metal binding site [ion binding]; metal-binding site 394013876 putative dimer interface [polypeptide binding]; other site 394013877 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 394013878 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394013879 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394013880 DNA binding site [nucleotide binding] 394013881 Predicted integral membrane protein [Function unknown]; Region: COG5616 394013882 Ligand-binding SRPBCC domain of Micromonospora echinospora CalC and related proteins; Region: SRPBCC_CalC; cd08891 394013883 putative hydrophobic ligand binding site [chemical binding]; other site 394013884 CLM binding site; other site 394013885 L1 loop; other site 394013886 DNA binding site [nucleotide binding] 394013887 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394013888 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 394013889 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394013890 dimerization interface [polypeptide binding]; other site 394013891 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 394013892 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 394013893 conserved cys residue [active] 394013894 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394013895 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394013896 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394013897 active site 394013898 phosphorylation site [posttranslational modification] 394013899 intermolecular recognition site; other site 394013900 dimerization interface [polypeptide binding]; other site 394013901 transcriptional regulator PhoB; Provisional; Region: PRK10161 394013902 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394013903 active site 394013904 phosphorylation site [posttranslational modification] 394013905 intermolecular recognition site; other site 394013906 dimerization interface [polypeptide binding]; other site 394013907 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394013908 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394013909 metal binding site [ion binding]; metal-binding site 394013910 active site 394013911 I-site; other site 394013912 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 394013913 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 394013914 active site 394013915 phosphorylation site [posttranslational modification] 394013916 intermolecular recognition site; other site 394013917 dimerization interface [polypeptide binding]; other site 394013918 Response regulator receiver domain; Region: Response_reg; pfam00072 394013919 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394013920 active site 394013921 phosphorylation site [posttranslational modification] 394013922 intermolecular recognition site; other site 394013923 dimerization interface [polypeptide binding]; other site 394013924 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394013925 cyclase homology domain; Region: CHD; cd07302 394013926 nucleotidyl binding site; other site 394013927 metal binding site [ion binding]; metal-binding site 394013928 dimer interface [polypeptide binding]; other site 394013929 RibD C-terminal domain; Region: RibD_C; cl17279 394013930 FOG: CBS domain [General function prediction only]; Region: COG0517 394013931 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 394013932 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 394013933 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 394013934 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 394013935 Mechanosensitive ion channel; Region: MS_channel; pfam00924 394013936 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 394013937 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 394013938 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 394013939 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 394013940 Sulfate transporter family; Region: Sulfate_transp; pfam00916 394013941 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 394013942 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 394013943 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 394013944 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 394013945 transmembrane helices; other site 394013946 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 394013947 TrkA-C domain; Region: TrkA_C; pfam02080 394013948 TrkA-C domain; Region: TrkA_C; pfam02080 394013949 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 394013950 Protein of unknown function (DUF1515); Region: DUF1515; pfam07439 394013951 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 394013952 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 394013953 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 394013954 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 394013955 active site 394013956 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 394013957 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 394013958 transferase, transferring glycosyl groups; Region: PLN02939 394013959 Terminase-like family; Region: Terminase_6; pfam03237 394013960 Bacteriophage terminase large (ATPase) subunit and inactivated derivatives [General function prediction only]; Region: COG5565 394013961 Uncharacterized conserved protein [Function unknown]; Region: COG3791 394013962 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 394013963 BA14K-like protein; Region: BA14K; pfam07886 394013964 BA14K-like protein; Region: BA14K; pfam07886 394013965 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 394013966 DnaA box-binding interface [nucleotide binding]; other site 394013967 Predicted transcriptional regulator [Transcription]; Region: COG2932 394013968 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394013969 non-specific DNA binding site [nucleotide binding]; other site 394013970 salt bridge; other site 394013971 sequence-specific DNA binding site [nucleotide binding]; other site 394013972 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 394013973 Catalytic site [active] 394013974 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 394013975 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394013976 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 394013977 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 394013978 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 394013979 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 394013980 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 394013981 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 394013982 nudix motif; other site 394013983 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 394013984 putative catalytic site [active] 394013985 putative phosphate binding site [ion binding]; other site 394013986 putative metal binding site [ion binding]; other site 394013987 TIGR02594 family protein; Region: TIGR02594 394013988 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 394013989 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 394013990 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 394013991 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 394013992 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 394013993 Predicted integral membrane protein [Function unknown]; Region: COG5616 394013994 TPR repeat; Region: TPR_11; pfam13414 394013995 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394013996 TPR motif; other site 394013997 binding surface 394013998 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394013999 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 394014000 DNA binding residues [nucleotide binding] 394014001 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 394014002 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 394014003 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 394014004 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 394014005 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 394014006 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 394014007 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 394014008 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394014009 cyclase homology domain; Region: CHD; cd07302 394014010 nucleotidyl binding site; other site 394014011 metal binding site [ion binding]; metal-binding site 394014012 dimer interface [polypeptide binding]; other site 394014013 Predicted integral membrane protein [Function unknown]; Region: COG5616 394014014 TPR repeat; Region: TPR_11; pfam13414 394014015 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394014016 binding surface 394014017 TPR motif; other site 394014018 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394014019 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394014020 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 394014021 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 394014022 nucleotide binding site [chemical binding]; other site 394014023 SulA interaction site; other site 394014024 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 394014025 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394014026 active site 394014027 motif I; other site 394014028 motif II; other site 394014029 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394014030 Walker A motif; other site 394014031 ATP binding site [chemical binding]; other site 394014032 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394014033 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 394014034 putative C-terminal domain interface [polypeptide binding]; other site 394014035 putative GSH binding site (G-site) [chemical binding]; other site 394014036 putative dimer interface [polypeptide binding]; other site 394014037 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 394014038 N-terminal domain interface [polypeptide binding]; other site 394014039 dimer interface [polypeptide binding]; other site 394014040 substrate binding pocket (H-site) [chemical binding]; other site 394014041 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 394014042 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 394014043 Walker A/P-loop; other site 394014044 ATP binding site [chemical binding]; other site 394014045 Q-loop/lid; other site 394014046 ABC transporter signature motif; other site 394014047 Walker B; other site 394014048 D-loop; other site 394014049 H-loop/switch region; other site 394014050 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 394014051 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394014052 dimer interface [polypeptide binding]; other site 394014053 conserved gate region; other site 394014054 ABC-ATPase subunit interface; other site 394014055 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 394014056 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 394014057 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 394014058 putative active site [active] 394014059 putative NTP binding site [chemical binding]; other site 394014060 putative nucleic acid binding site [nucleotide binding]; other site 394014061 Domain of unknown function DUF20; Region: UPF0118; pfam01594 394014062 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 394014063 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 394014064 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 394014065 HlyD family secretion protein; Region: HlyD_3; pfam13437 394014066 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 394014067 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394014068 S-adenosylmethionine binding site [chemical binding]; other site 394014069 short chain dehydrogenase; Provisional; Region: PRK08303 394014070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394014071 NAD(P) binding site [chemical binding]; other site 394014072 active site 394014073 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394014074 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 394014075 C-terminal domain interface [polypeptide binding]; other site 394014076 GSH binding site (G-site) [chemical binding]; other site 394014077 dimer interface [polypeptide binding]; other site 394014078 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 394014079 N-terminal domain interface [polypeptide binding]; other site 394014080 dimer interface [polypeptide binding]; other site 394014081 substrate binding pocket (H-site) [chemical binding]; other site 394014082 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394014083 active site 394014084 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394014085 catalytic tetrad [active] 394014086 SnoaL-like domain; Region: SnoaL_2; pfam12680 394014087 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 394014088 OpgC protein; Region: OpgC_C; cl17858 394014089 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 394014090 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394014091 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394014092 homodimer interface [polypeptide binding]; other site 394014093 catalytic residue [active] 394014094 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 394014095 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 394014096 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394014097 cyclase homology domain; Region: CHD; cd07302 394014098 nucleotidyl binding site; other site 394014099 metal binding site [ion binding]; metal-binding site 394014100 dimer interface [polypeptide binding]; other site 394014101 2TM domain; Region: 2TM; pfam13239 394014102 Methyltransferase domain; Region: Methyltransf_23; pfam13489 394014103 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 394014104 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394014105 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394014106 catalytic tetrad [active] 394014107 Transposase domain (DUF772); Region: DUF772; pfam05598 394014108 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 394014109 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 394014110 ketol-acid reductoisomerase; Provisional; Region: PRK05479 394014111 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 394014112 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 394014113 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394014114 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394014115 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 394014116 HlyD family secretion protein; Region: HlyD_3; pfam13437 394014117 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 394014118 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 394014119 Walker A/P-loop; other site 394014120 ATP binding site [chemical binding]; other site 394014121 Q-loop/lid; other site 394014122 ABC transporter signature motif; other site 394014123 Walker B; other site 394014124 D-loop; other site 394014125 H-loop/switch region; other site 394014126 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 394014127 FtsX-like permease family; Region: FtsX; pfam02687 394014128 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 394014129 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 394014130 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 394014131 Catalytic site; other site 394014132 Uncharacterized bacterial proteins with similarity to Aminoglycoside 3'-phosphotransferase (APH) and Choline kinase (ChoK) family members. The APH/ChoK subfamily is part of a larger superfamily that includes the catalytic domains of other kinases; Region: APH_ChoK_like_1; cd05155 394014133 Phosphotransferase enzyme family; Region: APH; pfam01636 394014134 putative active site [active] 394014135 putative substrate binding site [chemical binding]; other site 394014136 ATP binding site [chemical binding]; other site 394014137 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 394014138 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394014139 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394014140 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394014141 putative DNA binding site [nucleotide binding]; other site 394014142 putative Zn2+ binding site [ion binding]; other site 394014143 AsnC family; Region: AsnC_trans_reg; pfam01037 394014144 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 394014145 aspartate racemase; Region: asp_race; TIGR00035 394014146 Predicted transcriptional regulators [Transcription]; Region: COG1733 394014147 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 394014148 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 394014149 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 394014150 NADP binding site [chemical binding]; other site 394014151 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 394014152 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 394014153 putative catalytic residue [active] 394014154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 394014155 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 394014156 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394014157 DNA-binding site [nucleotide binding]; DNA binding site 394014158 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394014159 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394014160 homodimer interface [polypeptide binding]; other site 394014161 catalytic residue [active] 394014162 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 394014163 active site 394014164 hydrophilic channel; other site 394014165 dimerization interface [polypeptide binding]; other site 394014166 catalytic residues [active] 394014167 active site lid [active] 394014168 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 394014169 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 394014170 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 394014171 DNA binding residues [nucleotide binding] 394014172 dimer interface [polypeptide binding]; other site 394014173 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 394014174 DNA binding residues [nucleotide binding] 394014175 dimerization interface [polypeptide binding]; other site 394014176 Peptidase M4 family containing mostly uncharacterized proteins; Region: M4_uncharacterized; cd09598 394014177 Zn binding site [ion binding]; other site 394014178 Uncharacterized conserved protein [Function unknown]; Region: COG3482 394014179 Uncharacterized conserved protein [Function unknown]; Region: COG1944 394014180 YcaO-like family; Region: YcaO; pfam02624 394014181 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394014182 cyclase homology domain; Region: CHD; cd07302 394014183 nucleotidyl binding site; other site 394014184 metal binding site [ion binding]; metal-binding site 394014185 dimer interface [polypeptide binding]; other site 394014186 Predicted ATPase [General function prediction only]; Region: COG3899 394014187 AAA ATPase domain; Region: AAA_16; pfam13191 394014188 Predicted ATPase [General function prediction only]; Region: COG3903 394014189 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 394014190 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 394014191 AAA domain; Region: AAA_30; pfam13604 394014192 Family description; Region: UvrD_C_2; pfam13538 394014193 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 394014194 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 394014195 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 394014196 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4315 394014197 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 394014198 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 394014199 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 394014200 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394014201 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 394014202 DNA binding residues [nucleotide binding] 394014203 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 394014204 nitrile hydratase accessory protein; Region: nitrile_acc; TIGR03889 394014205 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 394014206 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 394014207 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 394014208 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 394014209 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394014210 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394014211 active site 394014212 catalytic tetrad [active] 394014213 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 394014214 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 394014215 putative valine binding site [chemical binding]; other site 394014216 dimer interface [polypeptide binding]; other site 394014217 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 394014218 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 394014219 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 394014220 PYR/PP interface [polypeptide binding]; other site 394014221 dimer interface [polypeptide binding]; other site 394014222 TPP binding site [chemical binding]; other site 394014223 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 394014224 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 394014225 TPP-binding site [chemical binding]; other site 394014226 dimer interface [polypeptide binding]; other site 394014227 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 394014228 HerA helicase [Replication, recombination, and repair]; Region: COG0433 394014229 Domain of unknown function DUF87; Region: DUF87; pfam01935 394014230 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 394014231 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 394014232 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 394014233 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 394014234 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394014235 motif II; other site 394014236 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 394014237 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 394014238 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 394014239 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 394014240 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 394014241 protein binding site [polypeptide binding]; other site 394014242 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 394014243 protein binding site [polypeptide binding]; other site 394014244 Uncharacterized conserved protein [Function unknown]; Region: COG3603 394014245 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 394014246 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 394014247 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 394014248 FtsH protease regulator HflC; Provisional; Region: PRK11029 394014249 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 394014250 HflK protein; Region: hflK; TIGR01933 394014251 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 394014252 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 394014253 folate binding site [chemical binding]; other site 394014254 NADP+ binding site [chemical binding]; other site 394014255 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394014256 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 394014257 putative C-terminal domain interface [polypeptide binding]; other site 394014258 putative GSH binding site (G-site) [chemical binding]; other site 394014259 putative dimer interface [polypeptide binding]; other site 394014260 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 394014261 N-terminal domain interface [polypeptide binding]; other site 394014262 dimer interface [polypeptide binding]; other site 394014263 substrate binding pocket (H-site) [chemical binding]; other site 394014264 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394014265 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394014266 putative DNA binding site [nucleotide binding]; other site 394014267 putative Zn2+ binding site [ion binding]; other site 394014268 AsnC family; Region: AsnC_trans_reg; pfam01037 394014269 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 394014270 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 394014271 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 394014272 Glutamate binding site [chemical binding]; other site 394014273 NAD binding site [chemical binding]; other site 394014274 catalytic residues [active] 394014275 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 394014276 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 394014277 potential frameshift: common BLAST hit: gi|222082371|ref|YP_002541736.1| amino acid ABC transporter 394014278 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 394014279 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394014280 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 394014281 Walker A/P-loop; other site 394014282 ATP binding site [chemical binding]; other site 394014283 Q-loop/lid; other site 394014284 ABC transporter signature motif; other site 394014285 Walker B; other site 394014286 D-loop; other site 394014287 H-loop/switch region; other site 394014288 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394014289 dimer interface [polypeptide binding]; other site 394014290 conserved gate region; other site 394014291 putative PBP binding loops; other site 394014292 ABC-ATPase subunit interface; other site 394014293 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 394014294 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 394014295 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394014296 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394014297 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 394014298 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 394014299 putative active site [active] 394014300 putative FMN binding site [chemical binding]; other site 394014301 putative substrate binding site [chemical binding]; other site 394014302 putative catalytic residue [active] 394014303 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 394014304 Cupin domain; Region: Cupin_2; cl17218 394014305 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 394014306 Ligand binding site [chemical binding]; other site 394014307 Electron transfer flavoprotein domain; Region: ETF; pfam01012 394014308 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 394014309 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 394014310 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 394014311 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 394014312 hydroxyglutarate oxidase; Provisional; Region: PRK11728 394014313 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 394014314 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 394014315 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 394014316 substrate binding site [chemical binding]; other site 394014317 catalytic Zn binding site [ion binding]; other site 394014318 NAD binding site [chemical binding]; other site 394014319 structural Zn binding site [ion binding]; other site 394014320 dimer interface [polypeptide binding]; other site 394014321 S-formylglutathione hydrolase; Region: PLN02442 394014322 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 394014323 glutathione-dependent formaldehyde-activating enzyme; Provisional; Region: PRK05417 394014324 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 394014325 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 394014326 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 394014327 metal binding site [ion binding]; metal-binding site 394014328 substrate binding pocket [chemical binding]; other site 394014329 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 394014330 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 394014331 putative NAD(P) binding site [chemical binding]; other site 394014332 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 394014333 thymidylate synthase; Reviewed; Region: thyA; PRK01827 394014334 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 394014335 dimerization interface [polypeptide binding]; other site 394014336 active site 394014337 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 394014338 putative active site pocket [active] 394014339 dimerization interface [polypeptide binding]; other site 394014340 putative catalytic residue [active] 394014341 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 394014342 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 394014343 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 394014344 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 394014345 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 394014346 FAD binding domain; Region: FAD_binding_4; pfam01565 394014347 Domain of unknown function (DUF1772); Region: DUF1772; pfam08592 394014348 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 394014349 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 394014350 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394014351 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 394014352 TM-ABC transporter signature motif; other site 394014353 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394014354 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 394014355 TM-ABC transporter signature motif; other site 394014356 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 394014357 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 394014358 Walker A/P-loop; other site 394014359 ATP binding site [chemical binding]; other site 394014360 Q-loop/lid; other site 394014361 ABC transporter signature motif; other site 394014362 Walker B; other site 394014363 D-loop; other site 394014364 H-loop/switch region; other site 394014365 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 394014366 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 394014367 Walker A/P-loop; other site 394014368 ATP binding site [chemical binding]; other site 394014369 Q-loop/lid; other site 394014370 ABC transporter signature motif; other site 394014371 Walker B; other site 394014372 D-loop; other site 394014373 H-loop/switch region; other site 394014374 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 394014375 Transcriptional regulators [Transcription]; Region: GntR; COG1802 394014376 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394014377 DNA-binding site [nucleotide binding]; DNA binding site 394014378 FCD domain; Region: FCD; pfam07729 394014379 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 394014380 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 394014381 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 394014382 HlyD family secretion protein; Region: HlyD_3; pfam13437 394014383 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 394014384 Uncharacterized conserved protein [Function unknown]; Region: COG2128 394014385 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 394014386 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 394014387 Part of AAA domain; Region: AAA_19; pfam13245 394014388 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 394014389 Family description; Region: UvrD_C_2; pfam13538 394014390 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 394014391 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394014392 Coenzyme A binding pocket [chemical binding]; other site 394014393 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 394014394 active site 394014395 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394014396 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394014397 metal binding site [ion binding]; metal-binding site 394014398 active site 394014399 I-site; other site 394014400 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 394014401 CreA protein; Region: CreA; pfam05981 394014402 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 394014403 putative CheA interaction surface; other site 394014404 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394014405 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394014406 dimer interface [polypeptide binding]; other site 394014407 putative CheW interface [polypeptide binding]; other site 394014408 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 394014409 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 394014410 Cu(I) binding site [ion binding]; other site 394014411 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 394014412 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394014413 S-adenosylmethionine binding site [chemical binding]; other site 394014414 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 394014415 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 394014416 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 394014417 active site 394014418 Predicted membrane protein [Function unknown]; Region: COG4541 394014419 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 394014420 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 394014421 oligomerization interface [polypeptide binding]; other site 394014422 active site 394014423 metal binding site [ion binding]; metal-binding site 394014424 pantoate--beta-alanine ligase; Region: panC; TIGR00018 394014425 Pantoate-beta-alanine ligase; Region: PanC; cd00560 394014426 active site 394014427 ATP-binding site [chemical binding]; other site 394014428 pantoate-binding site; other site 394014429 HXXH motif; other site 394014430 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 394014431 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394014432 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 394014433 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 394014434 nucleotide binding pocket [chemical binding]; other site 394014435 K-X-D-G motif; other site 394014436 catalytic site [active] 394014437 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 394014438 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 394014439 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 394014440 Dimer interface [polypeptide binding]; other site 394014441 BRCT sequence motif; other site 394014442 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 394014443 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 394014444 Walker A/P-loop; other site 394014445 ATP binding site [chemical binding]; other site 394014446 Q-loop/lid; other site 394014447 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 394014448 ABC transporter signature motif; other site 394014449 Walker B; other site 394014450 D-loop; other site 394014451 H-loop/switch region; other site 394014452 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 394014453 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 394014454 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 394014455 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 394014456 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 394014457 nucleotide binding site [chemical binding]; other site 394014458 SulA interaction site; other site 394014459 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 394014460 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 394014461 Cell division protein FtsA; Region: FtsA; smart00842 394014462 Cell division protein FtsA; Region: FtsA; pfam14450 394014463 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 394014464 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 394014465 Cell division protein FtsQ; Region: FtsQ; pfam03799 394014466 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 394014467 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 394014468 ATP-grasp domain; Region: ATP-grasp_4; cl17255 394014469 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 394014470 FAD binding domain; Region: FAD_binding_4; pfam01565 394014471 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 394014472 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 394014473 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 394014474 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 394014475 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 394014476 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 394014477 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 394014478 active site 394014479 homodimer interface [polypeptide binding]; other site 394014480 cell division protein FtsW; Region: ftsW; TIGR02614 394014481 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 394014482 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 394014483 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 394014484 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 394014485 Mg++ binding site [ion binding]; other site 394014486 putative catalytic motif [active] 394014487 putative substrate binding site [chemical binding]; other site 394014488 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 394014489 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 394014490 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 394014491 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 394014492 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 394014493 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 394014494 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 394014495 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 394014496 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 394014497 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 394014498 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 394014499 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 394014500 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 394014501 MraW methylase family; Region: Methyltransf_5; cl17771 394014502 cell division protein MraZ; Reviewed; Region: PRK00326 394014503 MraZ protein; Region: MraZ; pfam02381 394014504 hydroxyglutarate oxidase; Provisional; Region: PRK11728 394014505 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 394014506 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 394014507 N-acetyl-D-glucosamine binding site [chemical binding]; other site 394014508 catalytic residue [active] 394014509 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 394014510 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 394014511 amidase catalytic site [active] 394014512 Zn binding residues [ion binding]; other site 394014513 substrate binding site [chemical binding]; other site 394014514 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 394014515 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 394014516 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 394014517 putative metal binding site [ion binding]; other site 394014518 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 394014519 HSP70 interaction site [polypeptide binding]; other site 394014520 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated; Region: PRK06555 394014521 6-phosphofructokinase [Carbohydrate transport and metabolism]; Region: PfkA; COG0205 394014522 active site 394014523 ADP/pyrophosphate binding site [chemical binding]; other site 394014524 allosteric effector site; other site 394014525 dimerization interface [polypeptide binding]; other site 394014526 fructose-1,6-bisphosphate binding site; other site 394014527 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 394014528 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 394014529 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 394014530 N-acetyl-D-glucosamine binding site [chemical binding]; other site 394014531 catalytic residue [active] 394014532 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 394014533 Beta-lactamase; Region: Beta-lactamase; pfam00144 394014534 S-adenosylmethionine:diacylglycerol 3-amino-3-carboxypropyl transferase [Lipid metabolism]; Region: BtaA; COG5379 394014535 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394014536 S-adenosylmethionine binding site [chemical binding]; other site 394014537 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 394014538 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 394014539 active site 394014540 lytic murein transglycosylase; Region: MltB_2; TIGR02283 394014541 murein hydrolase B; Provisional; Region: PRK10760; cl17906 394014542 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 394014543 EamA-like transporter family; Region: EamA; pfam00892 394014544 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 394014545 EamA-like transporter family; Region: EamA; pfam00892 394014546 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 394014547 FAD binding site [chemical binding]; other site 394014548 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394014549 dimerization interface [polypeptide binding]; other site 394014550 putative DNA binding site [nucleotide binding]; other site 394014551 putative Zn2+ binding site [ion binding]; other site 394014552 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394014553 S-adenosylmethionine binding site [chemical binding]; other site 394014554 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 394014555 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394014556 Walker A/P-loop; other site 394014557 ATP binding site [chemical binding]; other site 394014558 Q-loop/lid; other site 394014559 ABC transporter signature motif; other site 394014560 Walker B; other site 394014561 D-loop; other site 394014562 H-loop/switch region; other site 394014563 ABC transporter; Region: ABC_tran_2; pfam12848 394014564 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 394014565 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 394014566 B1 nucleotide binding pocket [chemical binding]; other site 394014567 B2 nucleotide binding pocket [chemical binding]; other site 394014568 CAS motifs; other site 394014569 active site 394014570 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 394014571 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 394014572 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 394014573 thiamine pyrophosphate protein; Validated; Region: PRK08199 394014574 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 394014575 PYR/PP interface [polypeptide binding]; other site 394014576 dimer interface [polypeptide binding]; other site 394014577 TPP binding site [chemical binding]; other site 394014578 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 394014579 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 394014580 TPP-binding site [chemical binding]; other site 394014581 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3453 394014582 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 394014583 active site 394014584 catalytic residues [active] 394014585 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 394014586 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 394014587 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 394014588 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 394014589 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394014590 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 394014591 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 394014592 Magnesium ion binding site [ion binding]; other site 394014593 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 394014594 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 394014595 putative active site [active] 394014596 metal binding site [ion binding]; metal-binding site 394014597 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 394014598 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 394014599 NAD(P) binding site [chemical binding]; other site 394014600 catalytic residues [active] 394014601 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 394014602 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 394014603 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 394014604 amino acid permease (GABA permease); Region: 2A0304; TIGR00907 394014605 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 394014606 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 394014607 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 394014608 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 394014609 putative active site [active] 394014610 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 394014611 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 394014612 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394014613 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394014614 putative PBP binding loops; other site 394014615 dimer interface [polypeptide binding]; other site 394014616 ABC-ATPase subunit interface; other site 394014617 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394014618 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394014619 dimer interface [polypeptide binding]; other site 394014620 conserved gate region; other site 394014621 putative PBP binding loops; other site 394014622 ABC-ATPase subunit interface; other site 394014623 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 394014624 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394014625 Walker A/P-loop; other site 394014626 ATP binding site [chemical binding]; other site 394014627 Q-loop/lid; other site 394014628 ABC transporter signature motif; other site 394014629 Walker B; other site 394014630 D-loop; other site 394014631 H-loop/switch region; other site 394014632 TOBE domain; Region: TOBE_2; pfam08402 394014633 riboflavin synthase subunit beta; Provisional; Region: PRK12419 394014634 active site 394014635 homopentamer interface [polypeptide binding]; other site 394014636 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 394014637 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 394014638 conserved cys residue [active] 394014639 Uncharacterized conserved protein [Function unknown]; Region: COG3246 394014640 bifunctional 3-hydroxyacyl-CoA dehydrogenase/thioesterase; Validated; Region: PRK07531 394014641 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 394014642 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 394014643 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 394014644 active site 394014645 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 394014646 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 394014647 active site 394014648 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 394014649 CoA binding domain; Region: CoA_binding_2; pfam13380 394014650 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 394014651 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 394014652 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 394014653 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394014654 substrate binding site [chemical binding]; other site 394014655 oxyanion hole (OAH) forming residues; other site 394014656 trimer interface [polypeptide binding]; other site 394014657 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 394014658 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 394014659 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 394014660 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394014661 dimer interface [polypeptide binding]; other site 394014662 conserved gate region; other site 394014663 ABC-ATPase subunit interface; other site 394014664 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 394014665 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394014666 dimer interface [polypeptide binding]; other site 394014667 conserved gate region; other site 394014668 ABC-ATPase subunit interface; other site 394014669 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 394014670 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394014671 Walker A/P-loop; other site 394014672 ATP binding site [chemical binding]; other site 394014673 Q-loop/lid; other site 394014674 ABC transporter signature motif; other site 394014675 Walker B; other site 394014676 D-loop; other site 394014677 H-loop/switch region; other site 394014678 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394014679 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394014680 Walker A/P-loop; other site 394014681 ATP binding site [chemical binding]; other site 394014682 Q-loop/lid; other site 394014683 ABC transporter signature motif; other site 394014684 Walker B; other site 394014685 D-loop; other site 394014686 H-loop/switch region; other site 394014687 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394014688 Predicted acyl esterases [General function prediction only]; Region: COG2936 394014689 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 394014690 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 394014691 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 394014692 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 394014693 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394014694 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394014695 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 394014696 putative substrate binding pocket [chemical binding]; other site 394014697 dimerization interface [polypeptide binding]; other site 394014698 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 394014699 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 394014700 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 394014701 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394014702 Walker A/P-loop; other site 394014703 ATP binding site [chemical binding]; other site 394014704 Q-loop/lid; other site 394014705 ABC transporter signature motif; other site 394014706 Walker B; other site 394014707 D-loop; other site 394014708 H-loop/switch region; other site 394014709 TOBE domain; Region: TOBE_2; pfam08402 394014710 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394014711 putative PBP binding loops; other site 394014712 dimer interface [polypeptide binding]; other site 394014713 ABC-ATPase subunit interface; other site 394014714 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394014715 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394014716 dimer interface [polypeptide binding]; other site 394014717 conserved gate region; other site 394014718 putative PBP binding loops; other site 394014719 ABC-ATPase subunit interface; other site 394014720 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 394014721 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 394014722 tetrameric interface [polypeptide binding]; other site 394014723 NAD binding site [chemical binding]; other site 394014724 catalytic residues [active] 394014725 substrate binding site [chemical binding]; other site 394014726 ferrioxamine B receptor precursor protein; Provisional; Region: PRK14049 394014727 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 394014728 N-terminal plug; other site 394014729 ligand-binding site [chemical binding]; other site 394014730 Uncharacterized Fe-S protein [General function prediction only]; Region: FhuF; COG4114 394014731 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 394014732 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 394014733 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 394014734 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 394014735 intersubunit interface [polypeptide binding]; other site 394014736 Isochorismatase family; Region: Isochorismatase; pfam00857 394014737 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 394014738 catalytic triad [active] 394014739 conserved cis-peptide bond; other site 394014740 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394014741 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 394014742 AsnC family; Region: AsnC_trans_reg; pfam01037 394014743 Trimethylamine:corrinoid methyltransferase [Coenzyme metabolism]; Region: COG5598 394014744 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394014745 hydroxyglutarate oxidase; Provisional; Region: PRK11728 394014746 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 394014747 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 394014748 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 394014749 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394014750 hydroxyglutarate oxidase; Provisional; Region: PRK11728 394014751 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 394014752 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 394014753 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394014754 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394014755 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 394014756 dimerization interface [polypeptide binding]; other site 394014757 Predicted membrane protein [Function unknown]; Region: COG4425 394014758 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 394014759 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 394014760 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394014761 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394014762 putative DNA binding site [nucleotide binding]; other site 394014763 putative Zn2+ binding site [ion binding]; other site 394014764 AsnC family; Region: AsnC_trans_reg; pfam01037 394014765 methionine gamma-lyase; Validated; Region: PRK07049 394014766 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 394014767 homodimer interface [polypeptide binding]; other site 394014768 substrate-cofactor binding pocket; other site 394014769 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394014770 catalytic residue [active] 394014771 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_5; cd07238 394014772 dimer interface [polypeptide binding]; other site 394014773 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394014774 Predicted integral membrane protein [Function unknown]; Region: COG5500 394014775 cobalt transporter subunit CbtB (proposed); Region: CbtB; TIGR02459 394014776 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 394014777 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 394014778 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 394014779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 394014780 Putative glucoamylase; Region: Glycoamylase; pfam10091 394014781 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 394014782 metal ion-dependent adhesion site (MIDAS); other site 394014783 Uncharacterized conserved protein [Function unknown]; Region: COG1944 394014784 YcaO-like family; Region: YcaO; pfam02624 394014785 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 394014786 Predicted integral membrane protein [Function unknown]; Region: COG5616 394014787 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394014788 TPR motif; other site 394014789 TPR repeat; Region: TPR_11; pfam13414 394014790 binding surface 394014791 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394014792 binding surface 394014793 TPR motif; other site 394014794 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394014795 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394014796 non-specific DNA binding site [nucleotide binding]; other site 394014797 salt bridge; other site 394014798 sequence-specific DNA binding site [nucleotide binding]; other site 394014799 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3237 394014800 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 394014801 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 394014802 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 394014803 4Fe-4S binding domain; Region: Fer4; pfam00037 394014804 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 394014805 FOG: CBS domain [General function prediction only]; Region: COG0517 394014806 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 394014807 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 394014808 catalytic loop [active] 394014809 iron binding site [ion binding]; other site 394014810 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 394014811 4Fe-4S binding domain; Region: Fer4; pfam00037 394014812 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 394014813 [4Fe-4S] binding site [ion binding]; other site 394014814 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cd02775 394014815 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 394014816 SLBB domain; Region: SLBB; pfam10531 394014817 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 394014818 NADH-quinone oxidoreductase, E subunit; Region: nuoE_fam; TIGR01958 394014819 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 394014820 putative dimer interface [polypeptide binding]; other site 394014821 [2Fe-2S] cluster binding site [ion binding]; other site 394014822 NADH dehydrogenase subunit D; Validated; Region: PRK06075 394014823 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 394014824 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 394014825 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 394014826 NADH dehydrogenase subunit B; Validated; Region: PRK06411 394014827 NADH:ubiquinone oxidoreductase subunit 3 (chain A) [Energy production and conversion]; Region: NuoA; COG0838 394014828 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 394014829 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 394014830 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 394014831 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 394014832 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 394014833 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 394014834 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 394014835 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 394014836 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 394014837 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 394014838 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 394014839 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394014840 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394014841 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394014842 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394014843 active site 394014844 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394014845 catalytic tetrad [active] 394014846 Cupin domain; Region: Cupin_2; pfam07883 394014847 Helix-turn-helix domain; Region: HTH_18; pfam12833 394014848 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394014849 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 394014850 RibD C-terminal domain; Region: RibD_C; cl17279 394014851 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 394014852 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 394014853 ATP binding site [chemical binding]; other site 394014854 putative Mg++ binding site [ion binding]; other site 394014855 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394014856 nucleotide binding region [chemical binding]; other site 394014857 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 394014858 Competence protein CoiA-like family; Region: CoiA; cl11541 394014859 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 394014860 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 394014861 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 394014862 DNA binding residues [nucleotide binding] 394014863 dimer interface [polypeptide binding]; other site 394014864 mercury binding site [ion binding]; other site 394014865 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 394014866 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 394014867 putative active site [active] 394014868 putative metal binding site [ion binding]; other site 394014869 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 394014870 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394014871 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 394014872 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394014873 putative DNA binding site [nucleotide binding]; other site 394014874 putative Zn2+ binding site [ion binding]; other site 394014875 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394014876 Integrase core domain; Region: rve; pfam00665 394014877 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394014878 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 394014879 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 394014880 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394014881 Walker A motif; other site 394014882 ATP binding site [chemical binding]; other site 394014883 Walker B motif; other site 394014884 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 394014885 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 394014886 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 394014887 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 394014888 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394014889 NAD(P) binding site [chemical binding]; other site 394014890 active site 394014891 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394014892 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394014893 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 394014894 putative effector binding pocket; other site 394014895 dimerization interface [polypeptide binding]; other site 394014896 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394014897 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 394014898 Walker A motif; other site 394014899 ATP binding site [chemical binding]; other site 394014900 Walker B motif; other site 394014901 arginine finger; other site 394014902 Peptidase family M41; Region: Peptidase_M41; pfam01434 394014903 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 394014904 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 394014905 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394014906 Walker A motif; other site 394014907 ATP binding site [chemical binding]; other site 394014908 Walker B motif; other site 394014909 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394014910 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 394014911 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 394014912 catalytic residues [active] 394014913 catalytic nucleophile [active] 394014914 Recombinase; Region: Recombinase; pfam07508 394014915 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 394014916 Integrase core domain; Region: rve; pfam00665 394014917 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 394014918 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394014919 Walker A/P-loop; other site 394014920 ATP binding site [chemical binding]; other site 394014921 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394014922 AAA domain; Region: AAA_23; pfam13476 394014923 Walker A/P-loop; other site 394014924 ATP binding site [chemical binding]; other site 394014925 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 394014926 TniQ; Region: TniQ; pfam06527 394014927 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 394014928 DNA binding residues [nucleotide binding] 394014929 Helix-turn-helix domain; Region: HTH_17; pfam12728 394014930 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394014931 AAA domain; Region: AAA_22; pfam13401 394014932 Walker A/P-loop; other site 394014933 ATP binding site [chemical binding]; other site 394014934 Integrase core domain; Region: rve; pfam00665 394014935 Uncharacterized conserved protein [Function unknown]; Region: COG2968 394014936 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 394014937 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 394014938 Uncharacterized conserved protein [Function unknown]; Region: COG0432 394014939 Uncharacterized conserved protein [Function unknown]; Region: COG5507 394014940 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 394014941 N-acetyl-D-glucosamine binding site [chemical binding]; other site 394014942 catalytic residue [active] 394014943 Uncharacterized conserved protein [Function unknown]; Region: COG4274 394014944 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 394014945 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 394014946 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 394014947 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 394014948 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394014949 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 394014950 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 394014951 DNA binding residues [nucleotide binding] 394014952 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 394014953 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 394014954 NAD(P) binding site [chemical binding]; other site 394014955 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 394014956 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 394014957 substrate-cofactor binding pocket; other site 394014958 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394014959 catalytic residue [active] 394014960 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 394014961 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 394014962 ATP binding site [chemical binding]; other site 394014963 putative Mg++ binding site [ion binding]; other site 394014964 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394014965 nucleotide binding region [chemical binding]; other site 394014966 ATP-binding site [chemical binding]; other site 394014967 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 394014968 HRDC domain; Region: HRDC; pfam00570 394014969 DNA primase; Validated; Region: dnaG; PRK05667 394014970 CHC2 zinc finger; Region: zf-CHC2; cl17510 394014971 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 394014972 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 394014973 active site 394014974 metal binding site [ion binding]; metal-binding site 394014975 interdomain interaction site; other site 394014976 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 394014977 Uncharacterized conserved protein [Function unknown]; Region: COG1610 394014978 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 394014979 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 394014980 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 394014981 catalytic site [active] 394014982 subunit interface [polypeptide binding]; other site 394014983 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 394014984 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 394014985 Transposase [DNA replication, recombination, and repair]; Region: COG5433 394014986 aspartate aminotransferase; Provisional; Region: PRK05764 394014987 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394014988 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394014989 homodimer interface [polypeptide binding]; other site 394014990 catalytic residue [active] 394014991 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 394014992 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 394014993 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 394014994 DNA-binding site [nucleotide binding]; DNA binding site 394014995 RNA-binding motif; other site 394014996 BA14K-like protein; Region: BA14K; pfam07886 394014997 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 394014998 Bacterial SH3 domain; Region: SH3_3; pfam08239 394014999 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 394015000 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 394015001 MarR family; Region: MarR_2; pfam12802 394015002 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394015003 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394015004 active site 394015005 phosphorylation site [posttranslational modification] 394015006 intermolecular recognition site; other site 394015007 dimerization interface [polypeptide binding]; other site 394015008 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394015009 DNA binding site [nucleotide binding] 394015010 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394015011 HAMP domain; Region: HAMP; pfam00672 394015012 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 394015013 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394015014 ATP binding site [chemical binding]; other site 394015015 Mg2+ binding site [ion binding]; other site 394015016 G-X-G motif; other site 394015017 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 394015018 dimer interface [polypeptide binding]; other site 394015019 putative tRNA-binding site [nucleotide binding]; other site 394015020 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 394015021 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 394015022 Uncharacterized conserved protein [Function unknown]; Region: COG5465 394015023 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 394015024 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 394015025 Uncharacterized conserved protein [Function unknown]; Region: COG1565 394015026 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 394015027 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 394015028 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 394015029 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 394015030 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 394015031 active site 394015032 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 394015033 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 394015034 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 394015035 active site 394015036 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 394015037 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 394015038 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 394015039 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 394015040 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 394015041 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 394015042 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 394015043 type II secretion system protein E; Region: type_II_gspE; TIGR02533 394015044 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 394015045 Walker A motif; other site 394015046 ATP binding site [chemical binding]; other site 394015047 Walker B motif; other site 394015048 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 394015049 Type II secretion system (T2SS), protein M subtype b; Region: T2SM_b; pfam10741 394015050 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 394015051 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 394015052 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 394015053 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 394015054 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 394015055 type II secretion system protein D; Region: type_II_gspD; TIGR02517 394015056 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 394015057 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 394015058 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 394015059 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 394015060 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 394015061 potential frameshift: common BLAST hit: gi|57233842|ref|YP_182172.1| NHL/RHS/YD repeat-containing protein 394015062 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 394015063 RHS Repeat; Region: RHS_repeat; cl11982 394015064 RHS Repeat; Region: RHS_repeat; cl11982 394015065 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 394015066 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 394015067 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 394015068 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3564 394015069 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 394015070 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 394015071 NAD(P) binding site [chemical binding]; other site 394015072 catalytic residues [active] 394015073 Helix-turn-helix domain; Region: HTH_28; pfam13518 394015074 Winged helix-turn helix; Region: HTH_29; pfam13551 394015075 Homeodomain-like domain; Region: HTH_32; pfam13565 394015076 Integrase core domain; Region: rve; pfam00665 394015077 Integrase core domain; Region: rve_3; pfam13683 394015078 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 394015079 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 394015080 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 394015081 benzoate transporter; Region: benE; TIGR00843 394015082 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 394015083 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 394015084 5S rRNA interface [nucleotide binding]; other site 394015085 CTC domain interface [polypeptide binding]; other site 394015086 L16 interface [polypeptide binding]; other site 394015087 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 394015088 dimerization interface [polypeptide binding]; other site 394015089 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394015090 PAS domain; Region: PAS_9; pfam13426 394015091 putative active site [active] 394015092 heme pocket [chemical binding]; other site 394015093 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394015094 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394015095 metal binding site [ion binding]; metal-binding site 394015096 active site 394015097 I-site; other site 394015098 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394015099 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394015100 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 394015101 substrate binding pocket [chemical binding]; other site 394015102 membrane-bound complex binding site; other site 394015103 hinge residues; other site 394015104 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 394015105 putative active site [active] 394015106 catalytic residue [active] 394015107 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 394015108 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 394015109 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394015110 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394015111 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 394015112 substrate binding pocket [chemical binding]; other site 394015113 dimerization interface [polypeptide binding]; other site 394015114 ATP-dependent Clp protease adaptor; Reviewed; Region: clpS; PRK13019 394015115 GTP-binding protein YchF; Reviewed; Region: PRK09601 394015116 YchF GTPase; Region: YchF; cd01900 394015117 G1 box; other site 394015118 GTP/Mg2+ binding site [chemical binding]; other site 394015119 Switch I region; other site 394015120 G2 box; other site 394015121 Switch II region; other site 394015122 G3 box; other site 394015123 G4 box; other site 394015124 G5 box; other site 394015125 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 394015126 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 394015127 putative active site [active] 394015128 putative catalytic site [active] 394015129 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 394015130 putative active site [active] 394015131 putative catalytic site [active] 394015132 Domain of unknown function (DUF1873); Region: DUF1873; pfam08969 394015133 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 394015134 active site 394015135 Predicted small metal-binding protein [Function unknown]; Region: COG5466 394015136 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 394015137 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 394015138 active site 394015139 NTP binding site [chemical binding]; other site 394015140 metal binding triad [ion binding]; metal-binding site 394015141 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 394015142 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 394015143 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 394015144 putative active site [active] 394015145 putative CoA binding site [chemical binding]; other site 394015146 nudix motif; other site 394015147 metal binding site [ion binding]; metal-binding site 394015148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 394015149 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 394015150 MoxR-like ATPases [General function prediction only]; Region: COG0714 394015151 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394015152 Walker A motif; other site 394015153 ATP binding site [chemical binding]; other site 394015154 Walker B motif; other site 394015155 arginine finger; other site 394015156 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 394015157 Protein of unknown function DUF58; Region: DUF58; pfam01882 394015158 N-terminal double-transmembrane domain; Region: two_anch; TIGR02226 394015159 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 394015160 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 394015161 CARDB; Region: CARDB; pfam07705 394015162 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 394015163 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 394015164 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394015165 Coenzyme A binding pocket [chemical binding]; other site 394015166 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 394015167 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 394015168 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 394015169 putative dimer interface [polypeptide binding]; other site 394015170 N-terminal domain interface [polypeptide binding]; other site 394015171 putative substrate binding pocket (H-site) [chemical binding]; other site 394015172 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_21; cd04680 394015173 nudix motif; other site 394015174 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 394015175 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 394015176 putative active site [active] 394015177 putative metal binding site [ion binding]; other site 394015178 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 394015179 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394015180 binding surface 394015181 TPR motif; other site 394015182 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 394015183 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394015184 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 394015185 DNA binding residues [nucleotide binding] 394015186 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 394015187 2-isopropylmalate synthase; Validated; Region: PRK03739 394015188 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 394015189 active site 394015190 catalytic residues [active] 394015191 metal binding site [ion binding]; metal-binding site 394015192 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 394015193 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 394015194 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 394015195 oligomer interface [polypeptide binding]; other site 394015196 active site residues [active] 394015197 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 394015198 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 394015199 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 394015200 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 394015201 anthranilate synthase; Provisional; Region: PRK13566 394015202 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 394015203 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 394015204 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 394015205 glutamine binding [chemical binding]; other site 394015206 catalytic triad [active] 394015207 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 394015208 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 394015209 N-terminal plug; other site 394015210 ligand-binding site [chemical binding]; other site 394015211 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 394015212 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 394015213 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 394015214 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 394015215 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 394015216 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 394015217 Potassium binding sites [ion binding]; other site 394015218 Cesium cation binding sites [ion binding]; other site 394015219 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5345 394015220 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 394015221 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 394015222 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 394015223 Cytochrome c; Region: Cytochrom_C; cl11414 394015224 thymidine kinase; Provisional; Region: PRK04296 394015225 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 394015226 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 394015227 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394015228 dimer interface [polypeptide binding]; other site 394015229 conserved gate region; other site 394015230 putative PBP binding loops; other site 394015231 ABC-ATPase subunit interface; other site 394015232 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 394015233 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394015234 Walker A/P-loop; other site 394015235 ATP binding site [chemical binding]; other site 394015236 Q-loop/lid; other site 394015237 ABC transporter signature motif; other site 394015238 Walker B; other site 394015239 D-loop; other site 394015240 H-loop/switch region; other site 394015241 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 394015242 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 394015243 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 394015244 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394015245 dimerization interface [polypeptide binding]; other site 394015246 putative DNA binding site [nucleotide binding]; other site 394015247 putative Zn2+ binding site [ion binding]; other site 394015248 omega amino acid--pyruvate transaminase; Provisional; Region: PRK13360 394015249 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394015250 inhibitor-cofactor binding pocket; inhibition site 394015251 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394015252 catalytic residue [active] 394015253 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 394015254 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 394015255 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 394015256 active site 394015257 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 394015258 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 394015259 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 394015260 active site 394015261 catalytic site [active] 394015262 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 394015263 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 394015264 substrate binding site [chemical binding]; other site 394015265 ATP binding site [chemical binding]; other site 394015266 GTP-binding protein Der; Reviewed; Region: PRK00093 394015267 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 394015268 G1 box; other site 394015269 GTP/Mg2+ binding site [chemical binding]; other site 394015270 Switch I region; other site 394015271 G2 box; other site 394015272 Switch II region; other site 394015273 G3 box; other site 394015274 G4 box; other site 394015275 G5 box; other site 394015276 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 394015277 G1 box; other site 394015278 GTP/Mg2+ binding site [chemical binding]; other site 394015279 Switch I region; other site 394015280 G2 box; other site 394015281 G3 box; other site 394015282 Switch II region; other site 394015283 G4 box; other site 394015284 G5 box; other site 394015285 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 394015286 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 394015287 Predicted membrane protein [Function unknown]; Region: COG4094 394015288 Putative catalytic domain of uncharacterized bacterial hypothetical proteins similar to insect chitin deacetylase-like proteins; Region: CE4_CDA_like_3; cd10976 394015289 NodB motif; other site 394015290 putative active site [active] 394015291 putative catalytic site [active] 394015292 microcin B17 transporter; Reviewed; Region: PRK11098 394015293 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 394015294 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 394015295 active site 394015296 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 394015297 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 394015298 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 394015299 putative hydrophobic ligand binding site [chemical binding]; other site 394015300 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394015301 dimerization interface [polypeptide binding]; other site 394015302 putative DNA binding site [nucleotide binding]; other site 394015303 putative Zn2+ binding site [ion binding]; other site 394015304 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 394015305 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 394015306 N- and C-terminal domain interface [polypeptide binding]; other site 394015307 active site 394015308 MgATP binding site [chemical binding]; other site 394015309 catalytic site [active] 394015310 metal binding site [ion binding]; metal-binding site 394015311 glycerol binding site [chemical binding]; other site 394015312 homotetramer interface [polypeptide binding]; other site 394015313 homodimer interface [polypeptide binding]; other site 394015314 FBP binding site [chemical binding]; other site 394015315 protein IIAGlc interface [polypeptide binding]; other site 394015316 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 394015317 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 394015318 NAD binding site [chemical binding]; other site 394015319 homotetramer interface [polypeptide binding]; other site 394015320 homodimer interface [polypeptide binding]; other site 394015321 substrate binding site [chemical binding]; other site 394015322 active site 394015323 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 394015324 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 394015325 catalytic loop [active] 394015326 iron binding site [ion binding]; other site 394015327 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 394015328 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 394015329 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 394015330 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 394015331 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 394015332 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 394015333 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394015334 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 394015335 dimerization interface [polypeptide binding]; other site 394015336 substrate binding pocket [chemical binding]; other site 394015337 Predicted membrane protein [Function unknown]; Region: COG3748 394015338 Protein of unknown function (DUF989); Region: DUF989; pfam06181 394015339 Cytochrome c; Region: Cytochrom_C; pfam00034 394015340 guanine deaminase; Provisional; Region: PRK09228 394015341 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 394015342 active site 394015343 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 394015344 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 394015345 phosphate binding site [ion binding]; other site 394015346 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 394015347 active site 394015348 homotetramer interface [polypeptide binding]; other site 394015349 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 394015350 ureidoglycolate hydrolase; Provisional; Region: PRK03606 394015351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 394015352 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 394015353 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 394015354 active site 394015355 catalytic site [active] 394015356 tetramer interface [polypeptide binding]; other site 394015357 Protein of unknown function (DUF1045); Region: DUF1045; pfam06299 394015358 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394015359 Uncharacterized conserved protein [Function unknown]; Region: COG4121 394015360 Protein required for attachment to host cells; Region: Host_attach; cl02398 394015361 helicase 45; Provisional; Region: PTZ00424 394015362 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 394015363 ATP binding site [chemical binding]; other site 394015364 Mg++ binding site [ion binding]; other site 394015365 motif III; other site 394015366 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394015367 nucleotide binding region [chemical binding]; other site 394015368 ATP-binding site [chemical binding]; other site 394015369 Isochorismatase family; Region: Isochorismatase; pfam00857 394015370 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 394015371 catalytic triad [active] 394015372 conserved cis-peptide bond; other site 394015373 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 394015374 EamA-like transporter family; Region: EamA; pfam00892 394015375 EamA-like transporter family; Region: EamA; pfam00892 394015376 Uncharacterized conserved protein [Function unknown]; Region: COG2308 394015377 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 394015378 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 394015379 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 394015380 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 394015381 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 394015382 dihydroxy-acid dehydratase; Validated; Region: PRK06131 394015383 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 394015384 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 394015385 NAD(P) binding site [chemical binding]; other site 394015386 catalytic residues [active] 394015387 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 394015388 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 394015389 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394015390 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394015391 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394015392 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394015393 TM-ABC transporter signature motif; other site 394015394 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394015395 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394015396 Walker A/P-loop; other site 394015397 ATP binding site [chemical binding]; other site 394015398 Q-loop/lid; other site 394015399 ABC transporter signature motif; other site 394015400 Walker B; other site 394015401 D-loop; other site 394015402 H-loop/switch region; other site 394015403 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394015404 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 394015405 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 394015406 putative ligand binding site [chemical binding]; other site 394015407 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394015408 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394015409 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394015410 dimerization interface [polypeptide binding]; other site 394015411 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394015412 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394015413 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394015414 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 394015415 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 394015416 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 394015417 PAS domain S-box; Region: sensory_box; TIGR00229 394015418 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 394015419 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394015420 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394015421 metal binding site [ion binding]; metal-binding site 394015422 active site 394015423 I-site; other site 394015424 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394015425 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 394015426 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 394015427 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 394015428 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 394015429 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 394015430 putative ligand binding site [chemical binding]; other site 394015431 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 394015432 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394015433 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394015434 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394015435 TM-ABC transporter signature motif; other site 394015436 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 394015437 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394015438 Walker A/P-loop; other site 394015439 ATP binding site [chemical binding]; other site 394015440 Q-loop/lid; other site 394015441 ABC transporter signature motif; other site 394015442 Walker B; other site 394015443 D-loop; other site 394015444 H-loop/switch region; other site 394015445 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 394015446 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394015447 cyclase homology domain; Region: CHD; cd07302 394015448 nucleotidyl binding site; other site 394015449 metal binding site [ion binding]; metal-binding site 394015450 dimer interface [polypeptide binding]; other site 394015451 Uncharacterized conserved protein [Function unknown]; Region: COG3189 394015452 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 394015453 Ca2+ binding site [ion binding]; other site 394015454 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 394015455 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394015456 catalytic residue [active] 394015457 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 394015458 FAD binding domain; Region: FAD_binding_4; pfam01565 394015459 Berberine and berberine like; Region: BBE; pfam08031 394015460 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 394015461 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 394015462 substrate binding site; other site 394015463 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 394015464 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 394015465 NAD binding site [chemical binding]; other site 394015466 homotetramer interface [polypeptide binding]; other site 394015467 homodimer interface [polypeptide binding]; other site 394015468 substrate binding site [chemical binding]; other site 394015469 active site 394015470 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 394015471 Methyltransferase domain; Region: Methyltransf_23; pfam13489 394015472 Methyltransferase domain; Region: Methyltransf_12; pfam08242 394015473 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 394015474 Cephalosporin hydroxylase [Defense mechanisms]; Region: CmcI; COG3510 394015475 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 394015476 extended (e) SDRs; Region: SDR_e; cd08946 394015477 NAD(P) binding site [chemical binding]; other site 394015478 active site 394015479 substrate binding site [chemical binding]; other site 394015480 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 394015481 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 394015482 trimer interface [polypeptide binding]; other site 394015483 active site 394015484 substrate binding site [chemical binding]; other site 394015485 CoA binding site [chemical binding]; other site 394015486 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 394015487 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 394015488 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394015489 Walker A/P-loop; other site 394015490 ATP binding site [chemical binding]; other site 394015491 Q-loop/lid; other site 394015492 ABC transporter signature motif; other site 394015493 Walker B; other site 394015494 D-loop; other site 394015495 H-loop/switch region; other site 394015496 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 394015497 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394015498 Walker A/P-loop; other site 394015499 ATP binding site [chemical binding]; other site 394015500 Q-loop/lid; other site 394015501 ABC transporter signature motif; other site 394015502 Walker B; other site 394015503 D-loop; other site 394015504 H-loop/switch region; other site 394015505 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394015506 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 394015507 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394015508 ABC-ATPase subunit interface; other site 394015509 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 394015510 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394015511 dimer interface [polypeptide binding]; other site 394015512 conserved gate region; other site 394015513 putative PBP binding loops; other site 394015514 ABC-ATPase subunit interface; other site 394015515 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 394015516 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 394015517 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 394015518 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 394015519 active site 394015520 dimer interface [polypeptide binding]; other site 394015521 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 394015522 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 394015523 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394015524 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394015525 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 394015526 apolar tunnel; other site 394015527 heme binding site [chemical binding]; other site 394015528 dimerization interface [polypeptide binding]; other site 394015529 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 394015530 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 394015531 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 394015532 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 394015533 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 394015534 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 394015535 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 394015536 ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ChuT; COG4558 394015537 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 394015538 putative hemin binding site; other site 394015539 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 394015540 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 394015541 ABC-ATPase subunit interface; other site 394015542 dimer interface [polypeptide binding]; other site 394015543 putative PBP binding regions; other site 394015544 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 394015545 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 394015546 Walker A/P-loop; other site 394015547 ATP binding site [chemical binding]; other site 394015548 Q-loop/lid; other site 394015549 ABC transporter signature motif; other site 394015550 Walker B; other site 394015551 D-loop; other site 394015552 H-loop/switch region; other site 394015553 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 394015554 GAF domain; Region: GAF; pfam01590 394015555 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 394015556 PAS fold; Region: PAS_3; pfam08447 394015557 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 394015558 HWE histidine kinase; Region: HWE_HK; pfam07536 394015559 RNA polymerase sigma factor; Provisional; Region: PRK12516 394015560 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394015561 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 394015562 DNA binding residues [nucleotide binding] 394015563 two-component response regulator; Provisional; Region: PRK09191 394015564 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 394015565 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394015566 active site 394015567 phosphorylation site [posttranslational modification] 394015568 intermolecular recognition site; other site 394015569 dimerization interface [polypeptide binding]; other site 394015570 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 394015571 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 394015572 N- and C-terminal domain interface [polypeptide binding]; other site 394015573 active site 394015574 MgATP binding site [chemical binding]; other site 394015575 catalytic site [active] 394015576 metal binding site [ion binding]; metal-binding site 394015577 carbohydrate binding site [chemical binding]; other site 394015578 putative homodimer interface [polypeptide binding]; other site 394015579 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 394015580 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 394015581 motif II; other site 394015582 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 394015583 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 394015584 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 394015585 sorbitol dehydrogenase; Provisional; Region: PRK07067 394015586 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394015587 NAD(P) binding site [chemical binding]; other site 394015588 active site 394015589 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 394015590 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394015591 Walker A/P-loop; other site 394015592 ATP binding site [chemical binding]; other site 394015593 Q-loop/lid; other site 394015594 ABC transporter signature motif; other site 394015595 Walker B; other site 394015596 D-loop; other site 394015597 H-loop/switch region; other site 394015598 TOBE domain; Region: TOBE_2; pfam08402 394015599 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394015600 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394015601 dimer interface [polypeptide binding]; other site 394015602 conserved gate region; other site 394015603 putative PBP binding loops; other site 394015604 ABC-ATPase subunit interface; other site 394015605 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394015606 dimer interface [polypeptide binding]; other site 394015607 conserved gate region; other site 394015608 putative PBP binding loops; other site 394015609 ABC-ATPase subunit interface; other site 394015610 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394015611 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394015612 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 394015613 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 394015614 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 394015615 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 394015616 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 394015617 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 394015618 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 394015619 homodimer interface [polypeptide binding]; other site 394015620 active site 394015621 FMN binding site [chemical binding]; other site 394015622 substrate binding site [chemical binding]; other site 394015623 4Fe-4S binding domain; Region: Fer4_6; pfam12837 394015624 4Fe-4S binding domain; Region: Fer4; pfam00037 394015625 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 394015626 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 394015627 putative NAD(P) binding site [chemical binding]; other site 394015628 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394015629 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394015630 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394015631 dimerization interface [polypeptide binding]; other site 394015632 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 394015633 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 394015634 catalytic loop [active] 394015635 iron binding site [ion binding]; other site 394015636 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394015637 cyclase homology domain; Region: CHD; cd07302 394015638 nucleotidyl binding site; other site 394015639 metal binding site [ion binding]; metal-binding site 394015640 dimer interface [polypeptide binding]; other site 394015641 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 394015642 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 394015643 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394015644 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 394015645 allantoate amidohydrolase; Reviewed; Region: PRK12893 394015646 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 394015647 active site 394015648 metal binding site [ion binding]; metal-binding site 394015649 dimer interface [polypeptide binding]; other site 394015650 phenylhydantoinase; Validated; Region: PRK08323 394015651 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 394015652 tetramer interface [polypeptide binding]; other site 394015653 active site 394015654 Predicted mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: COG4101 394015655 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 394015656 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 394015657 Walker A/P-loop; other site 394015658 ATP binding site [chemical binding]; other site 394015659 Q-loop/lid; other site 394015660 ABC transporter signature motif; other site 394015661 Walker B; other site 394015662 D-loop; other site 394015663 H-loop/switch region; other site 394015664 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 394015665 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394015666 dimer interface [polypeptide binding]; other site 394015667 conserved gate region; other site 394015668 putative PBP binding loops; other site 394015669 ABC-ATPase subunit interface; other site 394015670 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 394015671 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394015672 dimer interface [polypeptide binding]; other site 394015673 conserved gate region; other site 394015674 putative PBP binding loops; other site 394015675 ABC-ATPase subunit interface; other site 394015676 NMT1/THI5 like; Region: NMT1; pfam09084 394015677 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 394015678 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 394015679 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 394015680 HlyD family secretion protein; Region: HlyD_3; pfam13437 394015681 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 394015682 ABC-2 type transporter; Region: ABC2_membrane; cl17235 394015683 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 394015684 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 394015685 ligand binding site [chemical binding]; other site 394015686 flexible hinge region; other site 394015687 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 394015688 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 394015689 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 394015690 UreF; Region: UreF; pfam01730 394015691 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 394015692 dimer interface [polypeptide binding]; other site 394015693 catalytic residues [active] 394015694 Uncharacterized conserved protein [Function unknown]; Region: COG1359 394015695 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 394015696 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 394015697 catalytic triad [active] 394015698 dimer interface [polypeptide binding]; other site 394015699 Homeodomain-like domain; Region: HTH_23; pfam13384 394015700 Winged helix-turn helix; Region: HTH_29; pfam13551 394015701 Homeodomain-like domain; Region: HTH_32; pfam13565 394015702 DDE superfamily endonuclease; Region: DDE_3; pfam13358 394015703 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 394015704 urease subunit alpha; Reviewed; Region: ureC; PRK13207 394015705 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 394015706 subunit interactions [polypeptide binding]; other site 394015707 active site 394015708 flap region; other site 394015709 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 394015710 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 394015711 gamma-beta subunit interface [polypeptide binding]; other site 394015712 alpha-beta subunit interface [polypeptide binding]; other site 394015713 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 394015714 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 394015715 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 394015716 alpha-gamma subunit interface [polypeptide binding]; other site 394015717 beta-gamma subunit interface [polypeptide binding]; other site 394015718 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 394015719 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 394015720 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 394015721 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 394015722 MarR family; Region: MarR; pfam01047 394015723 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK05963 394015724 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 394015725 dimer interface [polypeptide binding]; other site 394015726 active site 394015727 CoA binding pocket [chemical binding]; other site 394015728 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 394015729 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394015730 inhibitor-cofactor binding pocket; inhibition site 394015731 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394015732 catalytic residue [active] 394015733 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 394015734 AAA domain; Region: AAA_26; pfam13500 394015735 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 394015736 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 394015737 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394015738 catalytic residue [active] 394015739 biotin synthase; Region: bioB; TIGR00433 394015740 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394015741 FeS/SAM binding site; other site 394015742 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 394015743 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 394015744 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 394015745 dimerization interface [polypeptide binding]; other site 394015746 ligand binding site [chemical binding]; other site 394015747 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 394015748 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 394015749 Walker A/P-loop; other site 394015750 ATP binding site [chemical binding]; other site 394015751 Q-loop/lid; other site 394015752 ABC transporter signature motif; other site 394015753 Walker B; other site 394015754 D-loop; other site 394015755 H-loop/switch region; other site 394015756 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 394015757 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 394015758 Walker A/P-loop; other site 394015759 ATP binding site [chemical binding]; other site 394015760 Q-loop/lid; other site 394015761 ABC transporter signature motif; other site 394015762 Walker B; other site 394015763 D-loop; other site 394015764 H-loop/switch region; other site 394015765 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 394015766 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 394015767 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 394015768 TM-ABC transporter signature motif; other site 394015769 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394015770 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 394015771 TM-ABC transporter signature motif; other site 394015772 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 394015773 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 394015774 active site 394015775 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394015776 active site 394015777 phosphorylation site [posttranslational modification] 394015778 intermolecular recognition site; other site 394015779 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 394015780 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 394015781 ligand binding site [chemical binding]; other site 394015782 flexible hinge region; other site 394015783 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 394015784 putative switch regulator; other site 394015785 non-specific DNA interactions [nucleotide binding]; other site 394015786 DNA binding site [nucleotide binding] 394015787 sequence specific DNA binding site [nucleotide binding]; other site 394015788 putative cAMP binding site [chemical binding]; other site 394015789 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 394015790 classical (c) SDRs; Region: SDR_c; cd05233 394015791 NAD(P) binding site [chemical binding]; other site 394015792 active site 394015793 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 394015794 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394015795 Zn binding site [ion binding]; other site 394015796 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 394015797 Zn binding site [ion binding]; other site 394015798 Predicted esterase [General function prediction only]; Region: COG0400 394015799 putative hydrolase; Provisional; Region: PRK11460 394015800 VCBS repeat; Region: VCBS_repeat; TIGR01965 394015801 VCBS repeat; Region: VCBS_repeat; TIGR01965 394015802 VCBS repeat; Region: VCBS_repeat; TIGR01965 394015803 VCBS repeat; Region: VCBS_repeat; TIGR01965 394015804 VCBS repeat; Region: VCBS_repeat; TIGR01965 394015805 VCBS repeat; Region: VCBS_repeat; TIGR01965 394015806 VCBS repeat; Region: VCBS_repeat; TIGR01965 394015807 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 394015808 Predicted flavoprotein [General function prediction only]; Region: COG0431 394015809 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 394015810 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394015811 Zn binding site [ion binding]; other site 394015812 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 394015813 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394015814 Zn binding site [ion binding]; other site 394015815 Predicted amidohydrolase [General function prediction only]; Region: COG0388 394015816 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 394015817 putative active site [active] 394015818 catalytic triad [active] 394015819 putative dimer interface [polypeptide binding]; other site 394015820 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 394015821 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394015822 dimer interface [polypeptide binding]; other site 394015823 conserved gate region; other site 394015824 putative PBP binding loops; other site 394015825 ABC-ATPase subunit interface; other site 394015826 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394015827 putative PBP binding loops; other site 394015828 ABC-ATPase subunit interface; other site 394015829 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 394015830 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394015831 Walker A/P-loop; other site 394015832 ATP binding site [chemical binding]; other site 394015833 Q-loop/lid; other site 394015834 ABC transporter signature motif; other site 394015835 Walker B; other site 394015836 D-loop; other site 394015837 H-loop/switch region; other site 394015838 TOBE domain; Region: TOBE_2; pfam08402 394015839 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 394015840 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 394015841 amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family; Region: HEQRo_perm_3TM; TIGR01726 394015842 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394015843 putative PBP binding loops; other site 394015844 dimer interface [polypeptide binding]; other site 394015845 ABC-ATPase subunit interface; other site 394015846 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394015847 dimer interface [polypeptide binding]; other site 394015848 conserved gate region; other site 394015849 putative PBP binding loops; other site 394015850 ABC-ATPase subunit interface; other site 394015851 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 394015852 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394015853 substrate binding pocket [chemical binding]; other site 394015854 membrane-bound complex binding site; other site 394015855 hinge residues; other site 394015856 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 394015857 agmatinase; Region: agmatinase; TIGR01230 394015858 oligomer interface [polypeptide binding]; other site 394015859 putative active site [active] 394015860 Mn binding site [ion binding]; other site 394015861 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 394015862 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394015863 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 394015864 dimerization interface [polypeptide binding]; other site 394015865 substrate binding pocket [chemical binding]; other site 394015866 hypothetical protein; Provisional; Region: PRK07550 394015867 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394015868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394015869 homodimer interface [polypeptide binding]; other site 394015870 catalytic residue [active] 394015871 EamA-like transporter family; Region: EamA; pfam00892 394015872 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 394015873 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 394015874 NAD binding site [chemical binding]; other site 394015875 catalytic residues [active] 394015876 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 394015877 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 394015878 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 394015879 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394015880 Transcriptional regulators [Transcription]; Region: FadR; COG2186 394015881 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394015882 DNA-binding site [nucleotide binding]; DNA binding site 394015883 FCD domain; Region: FCD; pfam07729 394015884 hypothetical protein; Provisional; Region: PRK05968 394015885 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 394015886 homodimer interface [polypeptide binding]; other site 394015887 substrate-cofactor binding pocket; other site 394015888 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394015889 catalytic residue [active] 394015890 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394015891 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394015892 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394015893 dimer interface [polypeptide binding]; other site 394015894 conserved gate region; other site 394015895 putative PBP binding loops; other site 394015896 ABC-ATPase subunit interface; other site 394015897 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394015898 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394015899 dimer interface [polypeptide binding]; other site 394015900 conserved gate region; other site 394015901 putative PBP binding loops; other site 394015902 ABC-ATPase subunit interface; other site 394015903 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 394015904 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394015905 Walker A/P-loop; other site 394015906 ATP binding site [chemical binding]; other site 394015907 Q-loop/lid; other site 394015908 ABC transporter signature motif; other site 394015909 Walker B; other site 394015910 D-loop; other site 394015911 H-loop/switch region; other site 394015912 TOBE domain; Region: TOBE_2; pfam08402 394015913 Cytochrome c2 [Energy production and conversion]; Region: COG3474 394015914 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 394015915 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 394015916 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 394015917 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 394015918 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_2; cd02865 394015919 Subunit I/III interface [polypeptide binding]; other site 394015920 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 394015921 Subunit I/III interface [polypeptide binding]; other site 394015922 Predicted small integral membrane protein [Function unknown]; Region: COG5605 394015923 Predicted transcriptional regulator [Transcription]; Region: COG1959 394015924 Transcriptional regulator; Region: Rrf2; pfam02082 394015925 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 394015926 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 394015927 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 394015928 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 394015929 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394015930 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 394015931 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 394015932 Walker A/P-loop; other site 394015933 ATP binding site [chemical binding]; other site 394015934 Q-loop/lid; other site 394015935 ABC transporter signature motif; other site 394015936 Walker B; other site 394015937 D-loop; other site 394015938 H-loop/switch region; other site 394015939 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 394015940 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394015941 dimer interface [polypeptide binding]; other site 394015942 conserved gate region; other site 394015943 putative PBP binding loops; other site 394015944 ABC-ATPase subunit interface; other site 394015945 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 394015946 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 394015947 active site 394015948 dimer interface [polypeptide binding]; other site 394015949 non-prolyl cis peptide bond; other site 394015950 insertion regions; other site 394015951 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 394015952 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394015953 substrate binding pocket [chemical binding]; other site 394015954 membrane-bound complex binding site; other site 394015955 hinge residues; other site 394015956 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394015957 hydroxyglutarate oxidase; Provisional; Region: PRK11728 394015958 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 394015959 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 394015960 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 394015961 TrkA-N domain; Region: TrkA_N; pfam02254 394015962 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 394015963 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 394015964 Cupin domain; Region: Cupin_2; pfam07883 394015965 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 394015966 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 394015967 NAD(P) binding site [chemical binding]; other site 394015968 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 394015969 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 394015970 active site 394015971 C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain; Region: ED_TypeI_classII_C; cd08343 394015972 active site 394015973 metal binding site [ion binding]; metal-binding site 394015974 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 394015975 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 394015976 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 394015977 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 394015978 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 394015979 metal-binding site [ion binding] 394015980 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 394015981 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 394015982 Predicted integral membrane protein [Function unknown]; Region: COG5473 394015983 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 394015984 Cytochrome c; Region: Cytochrom_C; pfam00034 394015985 Cytochrome c; Region: Cytochrom_C; pfam00034 394015986 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 394015987 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 394015988 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 394015989 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 394015990 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 394015991 Low-spin heme binding site [chemical binding]; other site 394015992 Putative water exit pathway; other site 394015993 Binuclear center (active site) [active] 394015994 Putative proton exit pathway; other site 394015995 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 394015996 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 394015997 Cupin domain; Region: Cupin_2; pfam07883 394015998 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 394015999 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 394016000 active site 394016001 putative succinate semialdehyde dehydrogenase; Provisional; Region: PRK13968 394016002 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 394016003 NAD(P) binding site [chemical binding]; other site 394016004 catalytic residues [active] 394016005 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 394016006 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 394016007 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 394016008 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 394016009 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 394016010 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 394016011 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394016012 DNA-binding site [nucleotide binding]; DNA binding site 394016013 Transcriptional regulators [Transcription]; Region: GntR; COG1802 394016014 FCD domain; Region: FCD; pfam07729 394016015 Isochorismatase family; Region: Isochorismatase; pfam00857 394016016 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 394016017 catalytic triad [active] 394016018 conserved cis-peptide bond; other site 394016019 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 394016020 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 394016021 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 394016022 PYR/PP interface [polypeptide binding]; other site 394016023 dimer interface [polypeptide binding]; other site 394016024 TPP binding site [chemical binding]; other site 394016025 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 394016026 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 394016027 TPP-binding site [chemical binding]; other site 394016028 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 394016029 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 394016030 substrate binding site [chemical binding]; other site 394016031 ATP binding site [chemical binding]; other site 394016032 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 394016033 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 394016034 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 394016035 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 394016036 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394016037 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394016038 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394016039 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394016040 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394016041 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394016042 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 394016043 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 394016044 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394016045 Walker A/P-loop; other site 394016046 ATP binding site [chemical binding]; other site 394016047 Q-loop/lid; other site 394016048 ABC transporter signature motif; other site 394016049 Walker B; other site 394016050 D-loop; other site 394016051 H-loop/switch region; other site 394016052 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394016053 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394016054 TM-ABC transporter signature motif; other site 394016055 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394016056 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394016057 TM-ABC transporter signature motif; other site 394016058 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 394016059 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 394016060 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 394016061 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394016062 DNA binding site [nucleotide binding] 394016063 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 394016064 putative ligand binding site [chemical binding]; other site 394016065 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394016066 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 394016067 substrate binding site [chemical binding]; other site 394016068 oxyanion hole (OAH) forming residues; other site 394016069 trimer interface [polypeptide binding]; other site 394016070 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 394016071 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 394016072 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 394016073 enoyl-CoA hydratase; Provisional; Region: PRK08140 394016074 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394016075 substrate binding site [chemical binding]; other site 394016076 oxyanion hole (OAH) forming residues; other site 394016077 trimer interface [polypeptide binding]; other site 394016078 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 394016079 CoenzymeA binding site [chemical binding]; other site 394016080 subunit interaction site [polypeptide binding]; other site 394016081 PHB binding site; other site 394016082 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 394016083 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 394016084 acyl-activating enzyme (AAE) consensus motif; other site 394016085 AMP binding site [chemical binding]; other site 394016086 active site 394016087 CoA binding site [chemical binding]; other site 394016088 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394016089 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394016090 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 394016091 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 394016092 substrate binding site [chemical binding]; other site 394016093 dimer interface [polypeptide binding]; other site 394016094 NADP binding site [chemical binding]; other site 394016095 catalytic residues [active] 394016096 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 394016097 substrate binding site [chemical binding]; other site 394016098 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 394016099 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 394016100 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 394016101 FAD binding pocket [chemical binding]; other site 394016102 FAD binding motif [chemical binding]; other site 394016103 phosphate binding motif [ion binding]; other site 394016104 beta-alpha-beta structure motif; other site 394016105 NAD(p) ribose binding residues [chemical binding]; other site 394016106 NAD binding pocket [chemical binding]; other site 394016107 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 394016108 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 394016109 catalytic loop [active] 394016110 iron binding site [ion binding]; other site 394016111 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 394016112 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 394016113 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 394016114 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 394016115 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 394016116 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 394016117 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 394016118 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394016119 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394016120 active site 394016121 phosphorylation site [posttranslational modification] 394016122 intermolecular recognition site; other site 394016123 dimerization interface [polypeptide binding]; other site 394016124 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394016125 DNA binding residues [nucleotide binding] 394016126 dimerization interface [polypeptide binding]; other site 394016127 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 394016128 homodimer interface [polypeptide binding]; other site 394016129 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394016130 catalytic residue [active] 394016131 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 394016132 malate--CoA ligase subunit beta; Provisional; Region: PRK14046 394016133 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 394016134 CoA-ligase; Region: Ligase_CoA; pfam00549 394016135 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 394016136 CoA binding domain; Region: CoA_binding; smart00881 394016137 CoA-ligase; Region: Ligase_CoA; pfam00549 394016138 BCCT family transporter; Region: BCCT; pfam02028 394016139 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 394016140 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 394016141 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 394016142 NAD binding site [chemical binding]; other site 394016143 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 394016144 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 394016145 conserved cys residue [active] 394016146 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394016147 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394016148 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 394016149 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 394016150 conserved cys residue [active] 394016151 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394016152 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 394016153 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 394016154 NAD binding site [chemical binding]; other site 394016155 catalytic Zn binding site [ion binding]; other site 394016156 structural Zn binding site [ion binding]; other site 394016157 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 394016158 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 394016159 FAD binding pocket [chemical binding]; other site 394016160 FAD binding motif [chemical binding]; other site 394016161 phosphate binding motif [ion binding]; other site 394016162 beta-alpha-beta structure motif; other site 394016163 NAD binding pocket [chemical binding]; other site 394016164 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 394016165 catalytic loop [active] 394016166 iron binding site [ion binding]; other site 394016167 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 394016168 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 394016169 [2Fe-2S] cluster binding site [ion binding]; other site 394016170 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 394016171 putative alpha subunit interface [polypeptide binding]; other site 394016172 putative active site [active] 394016173 putative substrate binding site [chemical binding]; other site 394016174 Fe binding site [ion binding]; other site 394016175 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 394016176 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 394016177 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394016178 DNA-binding site [nucleotide binding]; DNA binding site 394016179 Periplasmic binding protein-like domain; Region: Peripla_BP_3; pfam13377 394016180 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 394016181 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 394016182 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 394016183 tetramer interface [polypeptide binding]; other site 394016184 active site 394016185 hypothetical protein; Validated; Region: PRK08245 394016186 dihydroxy-acid dehydratase; Provisional; Region: PRK13016 394016187 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 394016188 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 394016189 inhibitor site; inhibition site 394016190 active site 394016191 dimer interface [polypeptide binding]; other site 394016192 catalytic residue [active] 394016193 dihydroxy-acid dehydratase; Provisional; Region: PRK13016 394016194 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 394016195 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 394016196 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 394016197 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394016198 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394016199 DNA binding site [nucleotide binding] 394016200 domain linker motif; other site 394016201 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 394016202 putative dimerization interface [polypeptide binding]; other site 394016203 putative ligand binding site [chemical binding]; other site 394016204 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 394016205 Peptidase family M23; Region: Peptidase_M23; pfam01551 394016206 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 394016207 Clp amino terminal domain; Region: Clp_N; pfam02861 394016208 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394016209 Walker A motif; other site 394016210 ATP binding site [chemical binding]; other site 394016211 Walker B motif; other site 394016212 arginine finger; other site 394016213 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394016214 Walker A motif; other site 394016215 ATP binding site [chemical binding]; other site 394016216 Walker B motif; other site 394016217 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 394016218 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 394016219 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 394016220 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394016221 S-adenosylmethionine binding site [chemical binding]; other site 394016222 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 394016223 peptide chain release factor 1; Validated; Region: prfA; PRK00591 394016224 This domain is found in peptide chain release factors; Region: PCRF; smart00937 394016225 RF-1 domain; Region: RF-1; pfam00472 394016226 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 394016227 GAF domain; Region: GAF; pfam01590 394016228 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 394016229 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 394016230 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 394016231 aspartate kinase; Reviewed; Region: PRK06635 394016232 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 394016233 putative nucleotide binding site [chemical binding]; other site 394016234 putative catalytic residues [active] 394016235 putative Mg ion binding site [ion binding]; other site 394016236 putative aspartate binding site [chemical binding]; other site 394016237 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 394016238 putative allosteric regulatory site; other site 394016239 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 394016240 RibD C-terminal domain; Region: RibD_C; cl17279 394016241 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 394016242 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 394016243 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394016244 S-adenosylmethionine binding site [chemical binding]; other site 394016245 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5319 394016246 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 394016247 nitrilase; Region: PLN02798 394016248 putative active site [active] 394016249 catalytic triad [active] 394016250 dimer interface [polypeptide binding]; other site 394016251 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 394016252 GSH binding site [chemical binding]; other site 394016253 catalytic residues [active] 394016254 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 394016255 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 394016256 active site 394016257 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 394016258 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 394016259 active site 394016260 8-oxo-dGMP binding site [chemical binding]; other site 394016261 nudix motif; other site 394016262 metal binding site [ion binding]; metal-binding site 394016263 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394016264 Coenzyme A binding pocket [chemical binding]; other site 394016265 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 394016266 heterotetramer interface [polypeptide binding]; other site 394016267 active site pocket [active] 394016268 cleavage site 394016269 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 394016270 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 394016271 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 394016272 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 394016273 SEC-C motif; Region: SEC-C; pfam02810 394016274 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 394016275 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 394016276 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 394016277 Protein involved in cellulose biosynthesis (CelD) [Cell envelope biogenesis, outer membrane]; Region: COG5653 394016278 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 394016279 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 394016280 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 394016281 active site 394016282 acyl-activating enzyme (AAE) consensus motif; other site 394016283 putative CoA binding site [chemical binding]; other site 394016284 AMP binding site [chemical binding]; other site 394016285 FOG: CBS domain [General function prediction only]; Region: COG0517 394016286 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the BON (bacterial OsmY and nodulation domain) domain. BON is a putative phospholipid-binding domain found in a family of osmotic shock protection...; Region: CBS_pair_BON_assoc; cd04586 394016287 BON domain; Region: BON; pfam04972 394016288 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 394016289 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 394016290 NAD binding site [chemical binding]; other site 394016291 substrate binding site [chemical binding]; other site 394016292 catalytic Zn binding site [ion binding]; other site 394016293 tetramer interface [polypeptide binding]; other site 394016294 structural Zn binding site [ion binding]; other site 394016295 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 394016296 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 394016297 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 394016298 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 394016299 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 394016300 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 394016301 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 394016302 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 394016303 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 394016304 active site 394016305 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 394016306 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 394016307 minor groove reading motif; other site 394016308 helix-hairpin-helix signature motif; other site 394016309 substrate binding pocket [chemical binding]; other site 394016310 active site 394016311 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 394016312 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 394016313 active site 394016314 HIGH motif; other site 394016315 nucleotide binding site [chemical binding]; other site 394016316 active site 394016317 KMSKS motif; other site 394016318 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 394016319 short chain dehydrogenase; Provisional; Region: PRK05993 394016320 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 394016321 NADP binding site [chemical binding]; other site 394016322 active site 394016323 steroid binding site; other site 394016324 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 394016325 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 394016326 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 394016327 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 394016328 Ligand binding site [chemical binding]; other site 394016329 Electron transfer flavoprotein domain; Region: ETF; pfam01012 394016330 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 394016331 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 394016332 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 394016333 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 394016334 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 394016335 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 394016336 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 394016337 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 394016338 catalytic residues [active] 394016339 argininosuccinate lyase; Provisional; Region: PRK00855 394016340 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 394016341 active sites [active] 394016342 tetramer interface [polypeptide binding]; other site 394016343 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 394016344 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 394016345 active site 394016346 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 394016347 substrate binding site [chemical binding]; other site 394016348 catalytic residues [active] 394016349 dimer interface [polypeptide binding]; other site 394016350 TIGR02302 family protein; Region: aProt_lowcomp 394016351 Response regulator receiver domain; Region: Response_reg; pfam00072 394016352 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394016353 active site 394016354 phosphorylation site [posttranslational modification] 394016355 intermolecular recognition site; other site 394016356 dimerization interface [polypeptide binding]; other site 394016357 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 394016358 active site 394016359 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 394016360 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 394016361 Walker A/P-loop; other site 394016362 ATP binding site [chemical binding]; other site 394016363 Q-loop/lid; other site 394016364 ABC transporter signature motif; other site 394016365 Walker B; other site 394016366 D-loop; other site 394016367 H-loop/switch region; other site 394016368 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 394016369 Uncharacterized conserved protein [Function unknown]; Region: COG1434 394016370 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 394016371 putative active site [active] 394016372 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 394016373 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 394016374 putative acyl-acceptor binding pocket; other site 394016375 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 394016376 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 394016377 putative active site pocket [active] 394016378 dimerization interface [polypeptide binding]; other site 394016379 putative catalytic residue [active] 394016380 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 394016381 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 394016382 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 394016383 prephenate dehydrogenase; Validated; Region: PRK08507 394016384 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 394016385 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394016386 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394016387 homodimer interface [polypeptide binding]; other site 394016388 catalytic residue [active] 394016389 Methyltransferase domain; Region: Methyltransf_23; pfam13489 394016390 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394016391 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 394016392 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 394016393 aromatic amino acid exporter; Provisional; Region: PRK11689 394016394 EamA-like transporter family; Region: EamA; pfam00892 394016395 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 394016396 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 394016397 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 394016398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 394016399 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 394016400 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 394016401 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 394016402 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 394016403 metal ion-dependent adhesion site (MIDAS); other site 394016404 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 394016405 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 394016406 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 394016407 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 394016408 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 394016409 HSP70 interaction site [polypeptide binding]; other site 394016410 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 394016411 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 394016412 Domain of unknown function DUF21; Region: DUF21; pfam01595 394016413 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 394016414 Transporter associated domain; Region: CorC_HlyC; smart01091 394016415 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 394016416 active site 394016417 dimer interface [polypeptide binding]; other site 394016418 metal binding site [ion binding]; metal-binding site 394016419 shikimate kinase; Provisional; Region: PRK13946 394016420 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 394016421 ADP binding site [chemical binding]; other site 394016422 magnesium binding site [ion binding]; other site 394016423 putative shikimate binding site; other site 394016424 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 394016425 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 394016426 active site 394016427 DNA binding site [nucleotide binding] 394016428 Int/Topo IB signature motif; other site 394016429 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 394016430 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 394016431 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 394016432 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 394016433 CPxP motif; other site 394016434 Phospholipid methyltransferase; Region: PEMT; pfam04191 394016435 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 394016436 active site 394016437 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 394016438 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 394016439 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 394016440 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 394016441 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 394016442 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 394016443 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 394016444 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 394016445 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 394016446 metal binding site [ion binding]; metal-binding site 394016447 putative dimer interface [polypeptide binding]; other site 394016448 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394016449 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394016450 putative DNA binding site [nucleotide binding]; other site 394016451 putative Zn2+ binding site [ion binding]; other site 394016452 AsnC family; Region: AsnC_trans_reg; pfam01037 394016453 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 394016454 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 394016455 putative NAD(P) binding site [chemical binding]; other site 394016456 putative substrate binding site [chemical binding]; other site 394016457 catalytic Zn binding site [ion binding]; other site 394016458 structural Zn binding site [ion binding]; other site 394016459 dimer interface [polypeptide binding]; other site 394016460 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 394016461 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 394016462 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394016463 hypothetical protein; Provisional; Region: PRK06149 394016464 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 394016465 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394016466 inhibitor-cofactor binding pocket; inhibition site 394016467 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394016468 catalytic residue [active] 394016469 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 394016470 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394016471 DNA-binding site [nucleotide binding]; DNA binding site 394016472 UTRA domain; Region: UTRA; pfam07702 394016473 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 394016474 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 394016475 active site 394016476 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 394016477 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 394016478 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394016479 dimer interface [polypeptide binding]; other site 394016480 conserved gate region; other site 394016481 putative PBP binding loops; other site 394016482 ABC-ATPase subunit interface; other site 394016483 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 394016484 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394016485 Walker A/P-loop; other site 394016486 ATP binding site [chemical binding]; other site 394016487 Q-loop/lid; other site 394016488 ABC transporter signature motif; other site 394016489 Walker B; other site 394016490 D-loop; other site 394016491 H-loop/switch region; other site 394016492 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 394016493 active sites [active] 394016494 tetramer interface [polypeptide binding]; other site 394016495 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3758 394016496 Low affinity iron permease; Region: Iron_permease; cl12096 394016497 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394016498 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394016499 active site 394016500 catalytic tetrad [active] 394016501 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 394016502 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 394016503 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 394016504 Ligand Binding Site [chemical binding]; other site 394016505 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 394016506 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394016507 Coenzyme A binding pocket [chemical binding]; other site 394016508 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394016509 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394016510 active site 394016511 phosphorylation site [posttranslational modification] 394016512 intermolecular recognition site; other site 394016513 dimerization interface [polypeptide binding]; other site 394016514 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394016515 DNA binding site [nucleotide binding] 394016516 Response regulator receiver domain; Region: Response_reg; pfam00072 394016517 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394016518 active site 394016519 phosphorylation site [posttranslational modification] 394016520 intermolecular recognition site; other site 394016521 dimerization interface [polypeptide binding]; other site 394016522 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 394016523 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5400 394016524 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 394016525 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 394016526 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 394016527 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 394016528 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 394016529 RNA binding surface [nucleotide binding]; other site 394016530 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 394016531 active site 394016532 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 394016533 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 394016534 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394016535 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 394016536 DNA binding residues [nucleotide binding] 394016537 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 394016538 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 394016539 GDP-binding site [chemical binding]; other site 394016540 ACT binding site; other site 394016541 IMP binding site; other site 394016542 EamA-like transporter family; Region: EamA; pfam00892 394016543 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 394016544 EamA-like transporter family; Region: EamA; pfam00892 394016545 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 394016546 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 394016547 ligand binding site [chemical binding]; other site 394016548 NAD binding site [chemical binding]; other site 394016549 dimerization interface [polypeptide binding]; other site 394016550 catalytic site [active] 394016551 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 394016552 putative L-serine binding site [chemical binding]; other site 394016553 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 394016554 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 394016555 catalytic residue [active] 394016556 NGR_c27720; serC riboswitch 394016557 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 394016558 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 394016559 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 394016560 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 394016561 active site 394016562 substrate binding site [chemical binding]; other site 394016563 metal binding site [ion binding]; metal-binding site 394016564 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 394016565 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394016566 Walker A motif; other site 394016567 ATP binding site [chemical binding]; other site 394016568 Walker B motif; other site 394016569 arginine finger; other site 394016570 Peptidase family M41; Region: Peptidase_M41; pfam01434 394016571 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 394016572 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 394016573 Ligand Binding Site [chemical binding]; other site 394016574 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 394016575 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 394016576 binding surface 394016577 TPR motif; other site 394016578 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 394016579 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 394016580 ligand binding site [chemical binding]; other site 394016581 translocation protein TolB; Provisional; Region: tolB; PRK05137 394016582 TolB amino-terminal domain; Region: TolB_N; pfam04052 394016583 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 394016584 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 394016585 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 394016586 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 394016587 TolR protein; Region: tolR; TIGR02801 394016588 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 394016589 TolQ protein; Region: tolQ; TIGR02796 394016590 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 394016591 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 394016592 putative DNA binding site [nucleotide binding]; other site 394016593 putative homodimer interface [polypeptide binding]; other site 394016594 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 394016595 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 394016596 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 394016597 active site 394016598 DNA binding site [nucleotide binding] 394016599 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 394016600 DNA binding site [nucleotide binding] 394016601 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 394016602 nucleotide binding site [chemical binding]; other site 394016603 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 394016604 active site 394016605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394016606 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394016607 NAD(P) binding site [chemical binding]; other site 394016608 active site 394016609 Glycogenin belongs the GT 8 family and initiates the biosynthesis of glycogen; Region: GT8_Glycogenin; cd02537 394016610 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 394016611 substrate binding site; other site 394016612 Manganese binding site; other site 394016613 dimer interface; other site 394016614 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394016615 extended (e) SDRs; Region: SDR_e; cd08946 394016616 NAD(P) binding site [chemical binding]; other site 394016617 active site 394016618 substrate binding site [chemical binding]; other site 394016619 phosphodiesterase YaeI; Provisional; Region: PRK11340 394016620 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 394016621 putative active site [active] 394016622 putative metal binding site [ion binding]; other site 394016623 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 394016624 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394016625 Walker A motif; other site 394016626 ATP binding site [chemical binding]; other site 394016627 Walker B motif; other site 394016628 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 394016629 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 394016630 RuvA N terminal domain; Region: RuvA_N; pfam01330 394016631 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 394016632 active site 394016633 putative DNA-binding cleft [nucleotide binding]; other site 394016634 dimer interface [polypeptide binding]; other site 394016635 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 394016636 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 394016637 hypothetical protein; Validated; Region: PRK00110 394016638 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 394016639 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 394016640 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 394016641 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 394016642 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 394016643 HlyD family secretion protein; Region: HlyD_3; pfam13437 394016644 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 394016645 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 394016646 putative active site [active] 394016647 metal binding site [ion binding]; metal-binding site 394016648 homodimer binding site [polypeptide binding]; other site 394016649 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 394016650 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 394016651 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394016652 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394016653 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394016654 dimerization interface [polypeptide binding]; other site 394016655 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 394016656 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 394016657 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 394016658 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 394016659 TPP-binding site [chemical binding]; other site 394016660 dimer interface [polypeptide binding]; other site 394016661 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 394016662 PYR/PP interface [polypeptide binding]; other site 394016663 dimer interface [polypeptide binding]; other site 394016664 TPP binding site [chemical binding]; other site 394016665 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 394016666 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 394016667 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 394016668 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 394016669 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3554 394016670 Phosphoglycerate kinase; Region: PGK; pfam00162 394016671 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 394016672 substrate binding site [chemical binding]; other site 394016673 hinge regions; other site 394016674 ADP binding site [chemical binding]; other site 394016675 catalytic site [active] 394016676 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 394016677 active site 394016678 intersubunit interface [polypeptide binding]; other site 394016679 catalytic residue [active] 394016680 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 394016681 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394016682 cyclase homology domain; Region: CHD; cd07302 394016683 nucleotidyl binding site; other site 394016684 metal binding site [ion binding]; metal-binding site 394016685 dimer interface [polypeptide binding]; other site 394016686 Predicted integral membrane protein [Function unknown]; Region: COG5616 394016687 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 394016688 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394016689 TPR motif; other site 394016690 TPR repeat; Region: TPR_11; pfam13414 394016691 binding surface 394016692 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394016693 binding surface 394016694 TPR repeat; Region: TPR_11; pfam13414 394016695 TPR motif; other site 394016696 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394016697 putative substrate translocation pore; other site 394016698 Protein of unknown function (DUF1192); Region: DUF1192; pfam06698 394016699 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5317 394016700 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 394016701 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 394016702 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 394016703 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394016704 Walker A/P-loop; other site 394016705 ATP binding site [chemical binding]; other site 394016706 Q-loop/lid; other site 394016707 ABC transporter signature motif; other site 394016708 Walker B; other site 394016709 D-loop; other site 394016710 H-loop/switch region; other site 394016711 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 394016712 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 394016713 FAD binding domain; Region: FAD_binding_2; pfam00890 394016714 hypothetical protein; Validated; Region: PRK09039 394016715 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 394016716 ligand binding site [chemical binding]; other site 394016717 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 394016718 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 394016719 active site 394016720 dimerization interface [polypeptide binding]; other site 394016721 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 394016722 Sel1-like repeats; Region: SEL1; smart00671 394016723 Sel1-like repeats; Region: SEL1; smart00671 394016724 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 394016725 thiamine phosphate binding site [chemical binding]; other site 394016726 active site 394016727 pyrophosphate binding site [ion binding]; other site 394016728 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 394016729 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394016730 dimerization interface [polypeptide binding]; other site 394016731 putative DNA binding site [nucleotide binding]; other site 394016732 putative Zn2+ binding site [ion binding]; other site 394016733 Uncharacterized small protein [Function unknown]; Region: COG5570 394016734 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 394016735 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 394016736 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 394016737 ATP-grasp domain; Region: ATP-grasp; pfam02222 394016738 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 394016739 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394016740 TPR motif; other site 394016741 TPR repeat; Region: TPR_11; pfam13414 394016742 binding surface 394016743 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 394016744 PGAP1-like protein; Region: PGAP1; pfam07819 394016745 pyruvate kinase; Provisional; Region: PRK06247 394016746 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 394016747 domain interfaces; other site 394016748 active site 394016749 Predicted integral membrane protein [Function unknown]; Region: COG5480 394016750 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 394016751 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 394016752 hypothetical protein; Provisional; Region: PRK13694 394016753 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 394016754 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 394016755 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 394016756 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394016757 active site 394016758 phosphorylation site [posttranslational modification] 394016759 intermolecular recognition site; other site 394016760 dimerization interface [polypeptide binding]; other site 394016761 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394016762 Walker A motif; other site 394016763 ATP binding site [chemical binding]; other site 394016764 Walker B motif; other site 394016765 arginine finger; other site 394016766 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 394016767 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 394016768 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 394016769 active site 394016770 Zn binding site [ion binding]; other site 394016771 aminodeoxychorismate synthase; Provisional; Region: PRK07508 394016772 chorismate binding enzyme; Region: Chorismate_bind; cl10555 394016773 hypothetical protein; Provisional; Region: PRK07546 394016774 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 394016775 substrate-cofactor binding pocket; other site 394016776 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394016777 catalytic residue [active] 394016778 PAS fold; Region: PAS_7; pfam12860 394016779 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394016780 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394016781 metal binding site [ion binding]; metal-binding site 394016782 active site 394016783 I-site; other site 394016784 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 394016785 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 394016786 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 394016787 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 394016788 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 394016789 active site 394016790 metal binding site [ion binding]; metal-binding site 394016791 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 394016792 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 394016793 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 394016794 ferrochelatase; Reviewed; Region: hemH; PRK00035 394016795 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 394016796 C-terminal domain interface [polypeptide binding]; other site 394016797 active site 394016798 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 394016799 active site 394016800 N-terminal domain interface [polypeptide binding]; other site 394016801 arginine deiminase; Provisional; Region: PRK01388 394016802 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 394016803 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 394016804 Uncharacterized protein family, UPF0114; Region: UPF0114; pfam03350 394016805 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 394016806 HlyD family secretion protein; Region: HlyD_3; pfam13437 394016807 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 394016808 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 394016809 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 394016810 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 394016811 active site 394016812 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 394016813 PAS fold; Region: PAS_4; pfam08448 394016814 PAS fold; Region: PAS_7; pfam12860 394016815 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394016816 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394016817 metal binding site [ion binding]; metal-binding site 394016818 active site 394016819 I-site; other site 394016820 potential protein location (hypothetical protein) that overlaps protein (putative membrane protein) 394016821 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 394016822 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 394016823 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 394016824 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 394016825 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 394016826 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 394016827 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 394016828 tetramer interface [polypeptide binding]; other site 394016829 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394016830 catalytic residue [active] 394016831 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 394016832 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 394016833 active site 394016834 tetramer interface; other site 394016835 Transglycosylase SLT domain; Region: SLT_2; pfam13406 394016836 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 394016837 N-acetyl-D-glucosamine binding site [chemical binding]; other site 394016838 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 394016839 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri2; cd01829 394016840 active site 394016841 catalytic triad [active] 394016842 oxyanion hole [active] 394016843 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 394016844 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 394016845 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 394016846 active site 394016847 dimer interface [polypeptide binding]; other site 394016848 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 394016849 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 394016850 active site 394016851 FMN binding site [chemical binding]; other site 394016852 substrate binding site [chemical binding]; other site 394016853 3Fe-4S cluster binding site [ion binding]; other site 394016854 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 394016855 domain interface; other site 394016856 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 394016857 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 394016858 tetramer interface [polypeptide binding]; other site 394016859 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394016860 catalytic residue [active] 394016861 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 394016862 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 394016863 putative dimer interface [polypeptide binding]; other site 394016864 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 394016865 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 394016866 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 394016867 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 394016868 active site 394016869 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 394016870 Response regulator receiver domain; Region: Response_reg; pfam00072 394016871 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394016872 active site 394016873 phosphorylation site [posttranslational modification] 394016874 intermolecular recognition site; other site 394016875 dimerization interface [polypeptide binding]; other site 394016876 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 394016877 putative catalytic residues [active] 394016878 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 394016879 Double zinc ribbon; Region: DZR; pfam12773 394016880 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 394016881 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394016882 cyclase homology domain; Region: CHD; cd07302 394016883 nucleotidyl binding site; other site 394016884 metal binding site [ion binding]; metal-binding site 394016885 dimer interface [polypeptide binding]; other site 394016886 Predicted ATPase [General function prediction only]; Region: COG3899 394016887 AAA ATPase domain; Region: AAA_16; pfam13191 394016888 Tetratricopeptide repeat; Region: TPR_12; pfam13424 394016889 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394016890 TPR motif; other site 394016891 Tetratricopeptide repeat; Region: TPR_12; pfam13424 394016892 binding surface 394016893 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 394016894 Uncharacterized conserved protein [Function unknown]; Region: COG3791 394016895 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 394016896 MarR family; Region: MarR_2; pfam12802 394016897 Transcriptional regulators [Transcription]; Region: MarR; COG1846 394016898 MarR family; Region: MarR_2; pfam12802 394016899 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 394016900 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394016901 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 394016902 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 394016903 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394016904 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394016905 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394016906 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394016907 dimerization interface [polypeptide binding]; other site 394016908 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394016909 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394016910 active site 394016911 catalytic tetrad [active] 394016912 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 394016913 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 394016914 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 394016915 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 394016916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 394016917 Uncharacterized conserved protein [Function unknown]; Region: COG2308 394016918 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 394016919 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 394016920 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 394016921 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 394016922 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 394016923 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 394016924 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 394016925 metal ion-dependent adhesion site (MIDAS); other site 394016926 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 394016927 homodimer interface [polypeptide binding]; other site 394016928 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 394016929 active site pocket [active] 394016930 glycogen branching enzyme; Provisional; Region: PRK05402 394016931 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 394016932 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 394016933 active site 394016934 catalytic site [active] 394016935 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 394016936 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 394016937 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 394016938 ligand binding site; other site 394016939 oligomer interface; other site 394016940 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 394016941 dimer interface [polypeptide binding]; other site 394016942 N-terminal domain interface [polypeptide binding]; other site 394016943 sulfate 1 binding site; other site 394016944 glycogen synthase; Provisional; Region: glgA; PRK00654 394016945 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 394016946 ADP-binding pocket [chemical binding]; other site 394016947 homodimer interface [polypeptide binding]; other site 394016948 phosphoglucomutase; Region: PLN02307 394016949 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 394016950 substrate binding site [chemical binding]; other site 394016951 dimer interface [polypeptide binding]; other site 394016952 active site 394016953 metal binding site [ion binding]; metal-binding site 394016954 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 394016955 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 394016956 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 394016957 active site 394016958 catalytic site [active] 394016959 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 394016960 putative active site [active] 394016961 putative catalytic site [active] 394016962 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 394016963 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 394016964 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 394016965 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 394016966 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 394016967 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 394016968 hydroxyglutarate oxidase; Provisional; Region: PRK11728 394016969 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 394016970 TPR repeat; Region: TPR_11; pfam13414 394016971 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394016972 binding surface 394016973 TPR motif; other site 394016974 TPR repeat; Region: TPR_11; pfam13414 394016975 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394016976 binding surface 394016977 TPR motif; other site 394016978 TPR repeat; Region: TPR_11; pfam13414 394016979 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394016980 binding surface 394016981 TPR motif; other site 394016982 Protein of unknown function (DUF992); Region: DUF992; pfam06186 394016983 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394016984 cyclase homology domain; Region: CHD; cd07302 394016985 nucleotidyl binding site; other site 394016986 metal binding site [ion binding]; metal-binding site 394016987 dimer interface [polypeptide binding]; other site 394016988 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 394016989 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 394016990 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 394016991 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 394016992 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 394016993 ligand binding site [chemical binding]; other site 394016994 homodimer interface [polypeptide binding]; other site 394016995 NAD(P) binding site [chemical binding]; other site 394016996 trimer interface B [polypeptide binding]; other site 394016997 trimer interface A [polypeptide binding]; other site 394016998 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 394016999 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 394017000 PAS domain; Region: PAS; smart00091 394017001 PAS fold; Region: PAS_7; pfam12860 394017002 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394017003 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394017004 metal binding site [ion binding]; metal-binding site 394017005 active site 394017006 I-site; other site 394017007 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394017008 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 394017009 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 394017010 catalytic triad [active] 394017011 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 394017012 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 394017013 putative ligand binding site [chemical binding]; other site 394017014 NAD binding site [chemical binding]; other site 394017015 catalytic site [active] 394017016 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394017017 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394017018 DNA binding site [nucleotide binding] 394017019 domain linker motif; other site 394017020 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 394017021 putative dimerization interface [polypeptide binding]; other site 394017022 putative ligand binding site [chemical binding]; other site 394017023 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 394017024 MarR family; Region: MarR_2; cl17246 394017025 Creatinine amidohydrolase; Region: Creatininase; pfam02633 394017026 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 394017027 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 394017028 P-loop, Walker A motif; other site 394017029 Base recognition motif; other site 394017030 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 394017031 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 394017032 FOG: WD40 repeat [General function prediction only]; Region: COG2319 394017033 structural tetrad; other site 394017034 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 394017035 Predicted acetyltransferase [General function prediction only]; Region: COG3153 394017036 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 394017037 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 394017038 dimer interface [polypeptide binding]; other site 394017039 active site 394017040 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 394017041 catalytic residues [active] 394017042 substrate binding site [chemical binding]; other site 394017043 NGR_c29270; speF riboswitch 394017044 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394017045 LysR family transcriptional regulator; Provisional; Region: PRK14997 394017046 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 394017047 putative effector binding pocket; other site 394017048 dimerization interface [polypeptide binding]; other site 394017049 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 394017050 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 394017051 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 394017052 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 394017053 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 394017054 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 394017055 putative metal binding site [ion binding]; other site 394017056 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 394017057 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 394017058 active site 394017059 intersubunit interface [polypeptide binding]; other site 394017060 catalytic residue [active] 394017061 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 394017062 putative active site [active] 394017063 putative metal binding residues [ion binding]; other site 394017064 signature motif; other site 394017065 putative dimer interface [polypeptide binding]; other site 394017066 putative phosphate binding site [ion binding]; other site 394017067 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 394017068 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 394017069 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 394017070 active site residue [active] 394017071 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 394017072 substrate binding site [chemical binding]; other site 394017073 Protein of unknown function (DUF521); Region: DUF521; pfam04412 394017074 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 394017075 substrate binding site [chemical binding]; other site 394017076 ligand binding site [chemical binding]; other site 394017077 Uncharacterized conserved protein [Function unknown]; Region: COG3791 394017078 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 394017079 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 394017080 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394017081 dimer interface [polypeptide binding]; other site 394017082 conserved gate region; other site 394017083 ABC-ATPase subunit interface; other site 394017084 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 394017085 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 394017086 Walker A/P-loop; other site 394017087 ATP binding site [chemical binding]; other site 394017088 Q-loop/lid; other site 394017089 ABC transporter signature motif; other site 394017090 Walker B; other site 394017091 D-loop; other site 394017092 H-loop/switch region; other site 394017093 NIL domain; Region: NIL; pfam09383 394017094 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; pfam00232 394017095 beta-galactosidase; Region: BGL; TIGR03356 394017096 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394017097 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394017098 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394017099 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394017100 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394017101 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 394017102 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 394017103 xylose isomerase; Provisional; Region: PRK05474 394017104 xylose isomerase; Region: xylose_isom_A; TIGR02630 394017105 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 394017106 N- and C-terminal domain interface [polypeptide binding]; other site 394017107 D-xylulose kinase; Region: XylB; TIGR01312 394017108 active site 394017109 MgATP binding site [chemical binding]; other site 394017110 catalytic site [active] 394017111 metal binding site [ion binding]; metal-binding site 394017112 xylulose binding site [chemical binding]; other site 394017113 homodimer interface [polypeptide binding]; other site 394017114 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 394017115 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394017116 DNA binding site [nucleotide binding] 394017117 domain linker motif; other site 394017118 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 394017119 putative ligand binding site [chemical binding]; other site 394017120 Cytolysin, a secreted calcineurin-like phosphatase [Cell motility and secretion]; Region: COG5555 394017121 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 394017122 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 394017123 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394017124 putative substrate translocation pore; other site 394017125 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394017126 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 394017127 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 394017128 HlyD family secretion protein; Region: HlyD_3; pfam13437 394017129 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394017130 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394017131 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 394017132 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394017133 active site 394017134 metal binding site [ion binding]; metal-binding site 394017135 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 394017136 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394017137 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394017138 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394017139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3708 394017140 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 394017141 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 394017142 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 394017143 HIGH motif; other site 394017144 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 394017145 active site 394017146 KMSKS motif; other site 394017147 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 394017148 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 394017149 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 394017150 active site residue [active] 394017151 dimer interface [polypeptide binding]; other site 394017152 putative anticodon binding site; other site 394017153 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 394017154 motif 1; other site 394017155 active site 394017156 motif 2; other site 394017157 motif 3; other site 394017158 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 394017159 homotrimer interaction site [polypeptide binding]; other site 394017160 putative active site [active] 394017161 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394017162 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 394017163 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394017164 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 394017165 active site 394017166 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 394017167 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 394017168 ATP-dependent DNA ligase; Validated; Region: PRK09247 394017169 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 394017170 active site 394017171 DNA binding site [nucleotide binding] 394017172 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 394017173 DNA binding site [nucleotide binding] 394017174 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3452 394017175 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394017176 PAS fold; Region: PAS_3; pfam08447 394017177 putative active site [active] 394017178 heme pocket [chemical binding]; other site 394017179 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394017180 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394017181 metal binding site [ion binding]; metal-binding site 394017182 active site 394017183 I-site; other site 394017184 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394017185 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 394017186 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 394017187 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 394017188 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 394017189 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 394017190 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 394017191 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 394017192 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 394017193 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 394017194 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 394017195 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 394017196 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 394017197 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 394017198 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 394017199 active site 394017200 SAM binding site [chemical binding]; other site 394017201 homodimer interface [polypeptide binding]; other site 394017202 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 394017203 active site 394017204 putative homodimer interface [polypeptide binding]; other site 394017205 SAM binding site [chemical binding]; other site 394017206 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 394017207 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394017208 S-adenosylmethionine binding site [chemical binding]; other site 394017209 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 394017210 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 394017211 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 394017212 active site 394017213 SAM binding site [chemical binding]; other site 394017214 homodimer interface [polypeptide binding]; other site 394017215 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 394017216 active site 394017217 SAM binding site [chemical binding]; other site 394017218 homodimer interface [polypeptide binding]; other site 394017219 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 394017220 Precorrin-8X methylmutase; Region: CbiC; pfam02570 394017221 precorrin-3B synthase; Region: CobG; TIGR02435 394017222 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 394017223 active site 394017224 SAM binding site [chemical binding]; other site 394017225 homodimer interface [polypeptide binding]; other site 394017226 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 394017227 ligand binding site [chemical binding]; other site 394017228 active site 394017229 UGI interface [polypeptide binding]; other site 394017230 catalytic site [active] 394017231 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 394017232 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 394017233 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 394017234 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394017235 dimer interface [polypeptide binding]; other site 394017236 conserved gate region; other site 394017237 putative PBP binding loops; other site 394017238 ABC-ATPase subunit interface; other site 394017239 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 394017240 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394017241 Walker A/P-loop; other site 394017242 ATP binding site [chemical binding]; other site 394017243 Q-loop/lid; other site 394017244 ABC transporter signature motif; other site 394017245 Walker B; other site 394017246 D-loop; other site 394017247 H-loop/switch region; other site 394017248 TOBE domain; Region: TOBE; cl01440 394017249 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 394017250 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394017251 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 394017252 NAD binding site [chemical binding]; other site 394017253 homotetramer interface [polypeptide binding]; other site 394017254 homodimer interface [polypeptide binding]; other site 394017255 active site 394017256 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 394017257 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 394017258 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 394017259 tetramer interface [polypeptide binding]; other site 394017260 TPP-binding site [chemical binding]; other site 394017261 heterodimer interface [polypeptide binding]; other site 394017262 phosphorylation loop region [posttranslational modification] 394017263 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 394017264 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 394017265 alpha subunit interface [polypeptide binding]; other site 394017266 TPP binding site [chemical binding]; other site 394017267 heterodimer interface [polypeptide binding]; other site 394017268 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 394017269 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 394017270 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 394017271 E3 interaction surface; other site 394017272 lipoyl attachment site [posttranslational modification]; other site 394017273 e3 binding domain; Region: E3_binding; pfam02817 394017274 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 394017275 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 394017276 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 394017277 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394017278 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 394017279 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 394017280 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 394017281 dimer interface [polypeptide binding]; other site 394017282 active site 394017283 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 394017284 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 394017285 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 394017286 putative active site [active] 394017287 putative substrate binding site [chemical binding]; other site 394017288 putative cosubstrate binding site; other site 394017289 catalytic site [active] 394017290 maleylacetoacetate isomerase; Region: maiA; TIGR01262 394017291 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 394017292 C-terminal domain interface [polypeptide binding]; other site 394017293 GSH binding site (G-site) [chemical binding]; other site 394017294 putative dimer interface [polypeptide binding]; other site 394017295 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 394017296 dimer interface [polypeptide binding]; other site 394017297 N-terminal domain interface [polypeptide binding]; other site 394017298 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 394017299 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 394017300 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 394017301 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 394017302 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 394017303 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 394017304 Transcriptional regulators [Transcription]; Region: MarR; COG1846 394017305 MarR family; Region: MarR; pfam01047 394017306 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394017307 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394017308 putative DNA binding site [nucleotide binding]; other site 394017309 putative Zn2+ binding site [ion binding]; other site 394017310 AsnC family; Region: AsnC_trans_reg; pfam01037 394017311 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 394017312 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 394017313 dimer interface [polypeptide binding]; other site 394017314 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 394017315 active site 394017316 Fe binding site [ion binding]; other site 394017317 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 394017318 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394017319 DNA binding residues [nucleotide binding] 394017320 dimerization interface [polypeptide binding]; other site 394017321 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 394017322 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 394017323 Walker A/P-loop; other site 394017324 ATP binding site [chemical binding]; other site 394017325 Q-loop/lid; other site 394017326 ABC transporter signature motif; other site 394017327 Walker B; other site 394017328 D-loop; other site 394017329 H-loop/switch region; other site 394017330 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 394017331 HlyD family secretion protein; Region: HlyD_3; pfam13437 394017332 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394017333 binding surface 394017334 Tetratricopeptide repeat; Region: TPR_16; pfam13432 394017335 TPR motif; other site 394017336 Methyltransferase domain; Region: Methyltransf_25; pfam13649 394017337 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 394017338 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 394017339 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 394017340 metal binding site [ion binding]; metal-binding site 394017341 active site 394017342 I-site; other site 394017343 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 394017344 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 394017345 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394017346 NAD(P) binding site [chemical binding]; other site 394017347 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394017348 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394017349 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394017350 classical (c) SDRs; Region: SDR_c; cd05233 394017351 NAD(P) binding site [chemical binding]; other site 394017352 active site 394017353 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 394017354 classical (c) SDRs; Region: SDR_c; cd05233 394017355 NAD(P) binding site [chemical binding]; other site 394017356 active site 394017357 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 394017358 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 394017359 betaine aldehyde dehydrogenase; Region: PLN02467 394017360 Arabidopsis betaine aldehyde dehydrogenase 1 and 2, ALDH family 10A8 and 10A9-like; Region: ALDH_F10_BADH; cd07110 394017361 NAD(P) binding site [chemical binding]; other site 394017362 catalytic residues [active] 394017363 catalytic residues [active] 394017364 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 394017365 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 394017366 Proline racemase; Region: Pro_racemase; pfam05544 394017367 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 394017368 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 394017369 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 394017370 inhibitor site; inhibition site 394017371 active site 394017372 dimer interface [polypeptide binding]; other site 394017373 catalytic residue [active] 394017374 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 394017375 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394017376 dimer interface [polypeptide binding]; other site 394017377 conserved gate region; other site 394017378 putative PBP binding loops; other site 394017379 ABC-ATPase subunit interface; other site 394017380 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 394017381 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394017382 dimer interface [polypeptide binding]; other site 394017383 conserved gate region; other site 394017384 putative PBP binding loops; other site 394017385 ABC-ATPase subunit interface; other site 394017386 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 394017387 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 394017388 Walker A/P-loop; other site 394017389 ATP binding site [chemical binding]; other site 394017390 Q-loop/lid; other site 394017391 ABC transporter signature motif; other site 394017392 Walker B; other site 394017393 D-loop; other site 394017394 H-loop/switch region; other site 394017395 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394017396 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 394017397 substrate binding pocket [chemical binding]; other site 394017398 membrane-bound complex binding site; other site 394017399 hinge residues; other site 394017400 Transcriptional regulators [Transcription]; Region: GntR; COG1802 394017401 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394017402 DNA-binding site [nucleotide binding]; DNA binding site 394017403 FCD domain; Region: FCD; pfam07729 394017404 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 394017405 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 394017406 Transcriptional regulators [Transcription]; Region: MarR; COG1846 394017407 MarR family; Region: MarR_2; pfam12802 394017408 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 394017409 dimer interface [polypeptide binding]; other site 394017410 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394017411 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394017412 active site 394017413 phosphorylation site [posttranslational modification] 394017414 intermolecular recognition site; other site 394017415 dimerization interface [polypeptide binding]; other site 394017416 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394017417 DNA binding site [nucleotide binding] 394017418 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 394017419 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394017420 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394017421 dimer interface [polypeptide binding]; other site 394017422 phosphorylation site [posttranslational modification] 394017423 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394017424 ATP binding site [chemical binding]; other site 394017425 Mg2+ binding site [ion binding]; other site 394017426 G-X-G motif; other site 394017427 short chain dehydrogenase; Provisional; Region: PRK06701 394017428 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 394017429 NAD binding site [chemical binding]; other site 394017430 metal binding site [ion binding]; metal-binding site 394017431 active site 394017432 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 394017433 BON domain; Region: BON; pfam04972 394017434 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 394017435 Eukaryotic DNA topoisomerase I, catalytic core; Region: Topoisom_I; pfam01028 394017436 active site 394017437 DNA binding site [nucleotide binding] 394017438 Int/Topo IB signature motif; other site 394017439 short chain dehydrogenase; Provisional; Region: PRK06139 394017440 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 394017441 putative NAD(P) binding site [chemical binding]; other site 394017442 active site 394017443 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 394017444 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 394017445 NAD binding site [chemical binding]; other site 394017446 catalytic Zn binding site [ion binding]; other site 394017447 structural Zn binding site [ion binding]; other site 394017448 Predicted phosphoesterases, related to the Icc protein [General function prediction only]; Region: COG2129 394017449 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 394017450 active site 394017451 metal binding site [ion binding]; metal-binding site 394017452 fructokinase; Reviewed; Region: PRK09557 394017453 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 394017454 nucleotide binding site [chemical binding]; other site 394017455 hypothetical protein; Provisional; Region: PRK02487 394017456 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 394017457 dimerization interface [polypeptide binding]; other site 394017458 putative active cleft [active] 394017459 NGR_c30530; ROSE temperature sensitve riboswitch 394017460 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 394017461 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 394017462 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 394017463 substrate binding pocket [chemical binding]; other site 394017464 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 394017465 B12 binding site [chemical binding]; other site 394017466 cobalt ligand [ion binding]; other site 394017467 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 394017468 lycopene cyclase; Region: lycopene_cycl; TIGR01789 394017469 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 394017470 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 394017471 TM-ABC transporter signature motif; other site 394017472 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394017473 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 394017474 TM-ABC transporter signature motif; other site 394017475 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 394017476 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 394017477 Walker A/P-loop; other site 394017478 ATP binding site [chemical binding]; other site 394017479 Q-loop/lid; other site 394017480 ABC transporter signature motif; other site 394017481 Walker B; other site 394017482 D-loop; other site 394017483 H-loop/switch region; other site 394017484 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 394017485 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 394017486 Walker A/P-loop; other site 394017487 ATP binding site [chemical binding]; other site 394017488 Q-loop/lid; other site 394017489 ABC transporter signature motif; other site 394017490 Walker B; other site 394017491 D-loop; other site 394017492 H-loop/switch region; other site 394017493 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 394017494 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 394017495 putative ligand binding site [chemical binding]; other site 394017496 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394017497 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394017498 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394017499 dimerization interface [polypeptide binding]; other site 394017500 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 394017501 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 394017502 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 394017503 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 394017504 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 394017505 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 394017506 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 394017507 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 394017508 substrate-cofactor binding pocket; other site 394017509 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394017510 catalytic residue [active] 394017511 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 394017512 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 394017513 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 394017514 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 394017515 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 394017516 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 394017517 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 394017518 Uncharacterized conserved protein [Function unknown]; Region: COG5649 394017519 Uncharacterized conserved protein [Function unknown]; Region: COG5649 394017520 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 394017521 PAS domain; Region: PAS_9; pfam13426 394017522 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 394017523 Histidine kinase; Region: HisKA_2; pfam07568 394017524 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394017525 ATP binding site [chemical binding]; other site 394017526 Mg2+ binding site [ion binding]; other site 394017527 G-X-G motif; other site 394017528 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 394017529 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 394017530 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 394017531 Surface antigen; Region: Bac_surface_Ag; pfam01103 394017532 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 394017533 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 394017534 Family of unknown function (DUF490); Region: DUF490; pfam04357 394017535 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 394017536 putative dimer interface [polypeptide binding]; other site 394017537 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394017538 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394017539 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 394017540 AsnC family; Region: AsnC_trans_reg; pfam01037 394017541 Arginase family; Region: Arginase; cd09989 394017542 active site 394017543 Mn binding site [ion binding]; other site 394017544 oligomer interface [polypeptide binding]; other site 394017545 ornithine--oxo-acid transaminase; Reviewed; Region: rocD; PRK00854 394017546 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394017547 inhibitor-cofactor binding pocket; inhibition site 394017548 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394017549 catalytic residue [active] 394017550 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 394017551 putative CheA interaction surface; other site 394017552 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394017553 PAS domain; Region: PAS_9; pfam13426 394017554 putative active site [active] 394017555 heme pocket [chemical binding]; other site 394017556 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394017557 PAS domain; Region: PAS_9; pfam13426 394017558 putative active site [active] 394017559 heme pocket [chemical binding]; other site 394017560 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 394017561 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 394017562 dimer interface [polypeptide binding]; other site 394017563 putative CheW interface [polypeptide binding]; other site 394017564 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 394017565 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 394017566 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 394017567 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 394017568 catalytic loop [active] 394017569 iron binding site [ion binding]; other site 394017570 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 394017571 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 394017572 [4Fe-4S] binding site [ion binding]; other site 394017573 molybdopterin cofactor binding site; other site 394017574 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 394017575 molybdopterin cofactor binding site; other site 394017576 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 394017577 putative dimer interface [polypeptide binding]; other site 394017578 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 394017579 SLBB domain; Region: SLBB; pfam10531 394017580 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 394017581 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 394017582 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 394017583 putative dimer interface [polypeptide binding]; other site 394017584 [2Fe-2S] cluster binding site [ion binding]; other site 394017585 Transcriptional regulator [Transcription]; Region: LysR; COG0583 394017586 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394017587 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 394017588 dimerization interface [polypeptide binding]; other site 394017589 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 394017590 classical (c) SDRs; Region: SDR_c; cd05233 394017591 NAD(P) binding site [chemical binding]; other site 394017592 active site 394017593 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 394017594 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 394017595 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 394017596 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 394017597 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 394017598 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 394017599 Walker A/P-loop; other site 394017600 ATP binding site [chemical binding]; other site 394017601 Q-loop/lid; other site 394017602 ABC transporter signature motif; other site 394017603 Walker B; other site 394017604 D-loop; other site 394017605 H-loop/switch region; other site 394017606 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 394017607 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 394017608 Walker A/P-loop; other site 394017609 ATP binding site [chemical binding]; other site 394017610 Q-loop/lid; other site 394017611 ABC transporter signature motif; other site 394017612 Walker B; other site 394017613 D-loop; other site 394017614 H-loop/switch region; other site 394017615 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394017616 dimer interface [polypeptide binding]; other site 394017617 conserved gate region; other site 394017618 putative PBP binding loops; other site 394017619 ABC-ATPase subunit interface; other site 394017620 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394017621 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394017622 dimer interface [polypeptide binding]; other site 394017623 conserved gate region; other site 394017624 putative PBP binding loops; other site 394017625 ABC-ATPase subunit interface; other site 394017626 Predicted small integral membrane protein [Function unknown]; Region: COG5477 394017627 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394017628 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 394017629 metal binding site 2 [ion binding]; metal-binding site 394017630 putative DNA binding helix; other site 394017631 metal binding site 1 [ion binding]; metal-binding site 394017632 dimer interface [polypeptide binding]; other site 394017633 structural Zn2+ binding site [ion binding]; other site 394017634 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 394017635 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 394017636 metal binding site [ion binding]; metal-binding site 394017637 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 394017638 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 394017639 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 394017640 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 394017641 ABC-ATPase subunit interface; other site 394017642 dimer interface [polypeptide binding]; other site 394017643 putative PBP binding regions; other site 394017644 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 394017645 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 394017646 ABC-ATPase subunit interface; other site 394017647 dimer interface [polypeptide binding]; other site 394017648 putative PBP binding regions; other site 394017649 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 394017650 Transposase domain (DUF772); Region: DUF772; pfam05598 394017651 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 394017652 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 394017653 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394017654 putative DNA binding site [nucleotide binding]; other site 394017655 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 394017656 putative Zn2+ binding site [ion binding]; other site 394017657 AsnC family; Region: AsnC_trans_reg; pfam01037 394017658 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 394017659 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394017660 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 394017661 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 394017662 gamma subunit interface [polypeptide binding]; other site 394017663 epsilon subunit interface [polypeptide binding]; other site 394017664 LBP interface [polypeptide binding]; other site 394017665 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 394017666 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 394017667 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 394017668 alpha subunit interaction interface [polypeptide binding]; other site 394017669 Walker A motif; other site 394017670 ATP binding site [chemical binding]; other site 394017671 Walker B motif; other site 394017672 inhibitor binding site; inhibition site 394017673 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 394017674 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 394017675 core domain interface [polypeptide binding]; other site 394017676 delta subunit interface [polypeptide binding]; other site 394017677 epsilon subunit interface [polypeptide binding]; other site 394017678 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 394017679 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 394017680 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 394017681 beta subunit interaction interface [polypeptide binding]; other site 394017682 Walker A motif; other site 394017683 ATP binding site [chemical binding]; other site 394017684 Walker B motif; other site 394017685 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 394017686 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 394017687 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 394017688 primosome assembly protein PriA; Validated; Region: PRK05580 394017689 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 394017690 ATP binding site [chemical binding]; other site 394017691 putative Mg++ binding site [ion binding]; other site 394017692 helicase superfamily c-terminal domain; Region: HELICc; smart00490 394017693 nucleotide binding region [chemical binding]; other site 394017694 ATP-binding site [chemical binding]; other site 394017695 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 394017696 active site 394017697 intersubunit interactions; other site 394017698 catalytic residue [active] 394017699 Putative hemolysin [General function prediction only]; Region: COG3176 394017700 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 394017701 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 394017702 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 394017703 active site 394017704 DNA binding site [nucleotide binding] 394017705 Int/Topo IB signature motif; other site 394017706 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 394017707 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 394017708 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 394017709 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 394017710 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 394017711 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 394017712 short chain dehydrogenase; Provisional; Region: PRK06123 394017713 classical (c) SDRs; Region: SDR_c; cd05233 394017714 NAD(P) binding site [chemical binding]; other site 394017715 active site 394017716 LysE type translocator; Region: LysE; cl00565 394017717 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 394017718 E3 interaction surface; other site 394017719 lipoyl attachment site [posttranslational modification]; other site 394017720 e3 binding domain; Region: E3_binding; pfam02817 394017721 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 394017722 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 394017723 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 394017724 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 394017725 TPP-binding site [chemical binding]; other site 394017726 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 394017727 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 394017728 CoA binding domain; Region: CoA_binding; smart00881 394017729 CoA-ligase; Region: Ligase_CoA; pfam00549 394017730 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 394017731 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 394017732 CoA-ligase; Region: Ligase_CoA; pfam00549 394017733 malate dehydrogenase; Reviewed; Region: PRK06223 394017734 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 394017735 NAD(P) binding site [chemical binding]; other site 394017736 dimer interface [polypeptide binding]; other site 394017737 tetramer (dimer of dimers) interface [polypeptide binding]; other site 394017738 substrate binding site [chemical binding]; other site 394017739 Predicted ATPase [General function prediction only]; Region: COG1485 394017740 Protease inhibitor Inh; Region: Inh; pfam02974 394017741 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 394017742 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 394017743 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 394017744 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 394017745 L-aspartate oxidase; Provisional; Region: PRK06175 394017746 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 394017747 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 394017748 putative SdhC subunit interface [polypeptide binding]; other site 394017749 putative proximal heme binding site [chemical binding]; other site 394017750 putative Iron-sulfur protein interface [polypeptide binding]; other site 394017751 putative proximal quinone binding site; other site 394017752 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 394017753 Iron-sulfur protein interface; other site 394017754 proximal quinone binding site [chemical binding]; other site 394017755 SdhD (CybS) interface [polypeptide binding]; other site 394017756 proximal heme binding site [chemical binding]; other site 394017757 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 394017758 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 394017759 substrate binding site [chemical binding]; other site 394017760 ligand binding site [chemical binding]; other site 394017761 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 394017762 catalytic core [active] 394017763 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 394017764 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394017765 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394017766 active site 394017767 phosphorylation site [posttranslational modification] 394017768 intermolecular recognition site; other site 394017769 dimerization interface [polypeptide binding]; other site 394017770 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394017771 DNA binding site [nucleotide binding] 394017772 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 394017773 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 394017774 ligand binding site [chemical binding]; other site 394017775 flexible hinge region; other site 394017776 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394017777 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394017778 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 394017779 putative catalytic site [active] 394017780 putative phosphate binding site [ion binding]; other site 394017781 active site 394017782 metal binding site A [ion binding]; metal-binding site 394017783 DNA binding site [nucleotide binding] 394017784 putative AP binding site [nucleotide binding]; other site 394017785 putative metal binding site B [ion binding]; other site 394017786 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 394017787 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 394017788 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 394017789 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 394017790 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 394017791 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 394017792 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 394017793 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 394017794 Nitrogen regulatory protein P-II; Region: P-II; smart00938 394017795 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 394017796 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 394017797 active site 394017798 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 394017799 catalytic triad [active] 394017800 dimer interface [polypeptide binding]; other site 394017801 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 394017802 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 394017803 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394017804 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394017805 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 394017806 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 394017807 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 394017808 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 394017809 substrate binding site [chemical binding]; other site 394017810 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 394017811 homotrimer interaction site [polypeptide binding]; other site 394017812 putative active site [active] 394017813 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 394017814 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394017815 Walker A motif; other site 394017816 ATP binding site [chemical binding]; other site 394017817 Walker B motif; other site 394017818 arginine finger; other site 394017819 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 394017820 Homoserine trans-succinylase [Amino acid transport and metabolism]; Region: MetA; COG1897 394017821 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 394017822 proposed active site lysine [active] 394017823 conserved cys residue [active] 394017824 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 394017825 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 394017826 active site 394017827 catalytic residues [active] 394017828 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 394017829 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cd00138 394017830 putative active site [active] 394017831 catalytic site [active] 394017832 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar1_2; cd09128 394017833 PLD-like domain; Region: PLDc_2; pfam13091 394017834 putative active site [active] 394017835 putative catalytic site [active] 394017836 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 394017837 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 394017838 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 394017839 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 394017840 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 394017841 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 394017842 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 394017843 GTPase CgtA; Reviewed; Region: obgE; PRK12299 394017844 GTP1/OBG; Region: GTP1_OBG; pfam01018 394017845 Obg GTPase; Region: Obg; cd01898 394017846 G1 box; other site 394017847 GTP/Mg2+ binding site [chemical binding]; other site 394017848 Switch I region; other site 394017849 G2 box; other site 394017850 G3 box; other site 394017851 Switch II region; other site 394017852 G4 box; other site 394017853 G5 box; other site 394017854 gamma-glutamyl kinase; Provisional; Region: PRK05429 394017855 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 394017856 nucleotide binding site [chemical binding]; other site 394017857 homotetrameric interface [polypeptide binding]; other site 394017858 putative phosphate binding site [ion binding]; other site 394017859 putative allosteric binding site; other site 394017860 PUA domain; Region: PUA; pfam01472 394017861 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 394017862 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 394017863 putative catalytic cysteine [active] 394017864 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 394017865 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 394017866 active site 394017867 (T/H)XGH motif; other site 394017868 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 394017869 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 394017870 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 394017871 Peptidase family M23; Region: Peptidase_M23; pfam01551 394017872 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 394017873 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 394017874 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 394017875 protein binding site [polypeptide binding]; other site 394017876 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 394017877 Catalytic dyad [active] 394017878 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 394017879 NodB motif; other site 394017880 putative active site [active] 394017881 putative catalytic site [active] 394017882 Zn binding site [ion binding]; other site 394017883 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 394017884 putative active site [active] 394017885 Ap4A binding site [chemical binding]; other site 394017886 nudix motif; other site 394017887 putative metal binding site [ion binding]; other site 394017888 integron integrase; Region: integrase_gron; TIGR02249 394017889 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 394017890 Int/Topo IB signature motif; other site 394017891 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 394017892 Putative transposase; Region: Y2_Tnp; pfam04986 394017893 DDE superfamily endonuclease; Region: DDE_3; pfam13358 394017894 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 394017895 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 394017896 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 394017897 heme binding site [chemical binding]; other site 394017898 ferroxidase diiron center [ion binding]; other site 394017899 ferroxidase pore; other site 394017900 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 394017901 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 394017902 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 394017903 putative active site [active] 394017904 putative PHP Thumb interface [polypeptide binding]; other site 394017905 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 394017906 generic binding surface II; other site 394017907 generic binding surface I; other site 394017908 DNA Polymerase Y-family; Region: PolY_like; cd03468 394017909 active site 394017910 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 394017911 DNA binding site [nucleotide binding] 394017912 Uncharacterized conserved protein [Function unknown]; Region: COG4544 394017913 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 394017914 Uncharacterized conserved protein [Function unknown]; Region: COG2835 394017915 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 394017916 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 394017917 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 394017918 catalytic residues [active] 394017919 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 394017920 TPR motif; other site 394017921 binding surface 394017922 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 394017923 putative deacylase active site [active] 394017924 amidase; Provisional; Region: PRK07056 394017925 amidase; Validated; Region: PRK05962 394017926 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 394017927 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 394017928 putative active site [active] 394017929 putative metal binding site [ion binding]; other site 394017930 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 394017931 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 394017932 G1 box; other site 394017933 putative GEF interaction site [polypeptide binding]; other site 394017934 GTP/Mg2+ binding site [chemical binding]; other site 394017935 Switch I region; other site 394017936 G2 box; other site 394017937 G3 box; other site 394017938 Switch II region; other site 394017939 G4 box; other site 394017940 G5 box; other site 394017941 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 394017942 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 394017943 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 394017944 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394017945 Coenzyme A binding pocket [chemical binding]; other site 394017946 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 394017947 dimer interface [polypeptide binding]; other site 394017948 substrate binding site [chemical binding]; other site 394017949 metal binding sites [ion binding]; metal-binding site 394017950 hypothetical protein; Validated; Region: PRK01310 394017951 YGGT family; Region: YGGT; pfam02325 394017952 H+ Antiporter protein; Region: 2A0121; TIGR00900 394017953 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394017954 putative substrate translocation pore; other site 394017955 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 394017956 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 394017957 catalytic triad [active] 394017958 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 394017959 putative metal binding site [ion binding]; other site 394017960 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 394017961 HemY protein N-terminus; Region: HemY_N; pfam07219 394017962 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 394017963 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 394017964 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 394017965 active site 394017966 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 394017967 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 394017968 domain interfaces; other site 394017969 active site 394017970 UGMP family protein; Validated; Region: PRK09604 394017971 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 394017972 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 394017973 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 394017974 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 394017975 YciI-like protein; Reviewed; Region: PRK12865 394017976 Uncharacterized conserved protein [Function unknown]; Region: COG2947 394017977 Predicted methyltransferase [General function prediction only]; Region: COG3897 394017978 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 394017979 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 394017980 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394017981 substrate binding pocket [chemical binding]; other site 394017982 membrane-bound complex binding site; other site 394017983 hinge residues; other site 394017984 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394017985 dimer interface [polypeptide binding]; other site 394017986 conserved gate region; other site 394017987 putative PBP binding loops; other site 394017988 ABC-ATPase subunit interface; other site 394017989 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 394017990 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 394017991 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 394017992 RimM N-terminal domain; Region: RimM; pfam01782 394017993 PRC-barrel domain; Region: PRC; pfam05239 394017994 Ribosomal protein S16 [Translation, ribosomal structure and biogenesis]; Region: RpsP; COG0228 394017995 chorismate mutase; Provisional; Region: PRK09239 394017996 signal recognition particle protein; Provisional; Region: PRK10867 394017997 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 394017998 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 394017999 P loop; other site 394018000 GTP binding site [chemical binding]; other site 394018001 Signal peptide binding domain; Region: SRP_SPB; pfam02978 394018002 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 394018003 MarR family; Region: MarR_2; pfam12802 394018004 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 394018005 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 394018006 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 394018007 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 394018008 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 394018009 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 394018010 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 394018011 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394018012 FeS/SAM binding site; other site 394018013 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 394018014 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 394018015 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 394018016 intracellular septation protein A; Reviewed; Region: PRK00259 394018017 hypothetical protein; Provisional; Region: PRK00944 394018018 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 394018019 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 394018020 catalytic residues [active] 394018021 central insert; other site 394018022 heme exporter protein CcmC; Region: ccmC; TIGR01191 394018023 heme exporter protein CcmB; Region: ccmB; TIGR01190 394018024 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 394018025 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394018026 Walker A/P-loop; other site 394018027 ATP binding site [chemical binding]; other site 394018028 Q-loop/lid; other site 394018029 ABC transporter signature motif; other site 394018030 Walker B; other site 394018031 D-loop; other site 394018032 H-loop/switch region; other site 394018033 aconitate hydratase; Validated; Region: PRK09277 394018034 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 394018035 substrate binding site [chemical binding]; other site 394018036 ligand binding site [chemical binding]; other site 394018037 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 394018038 substrate binding site [chemical binding]; other site 394018039 Uncharacterized secreted protein [Function unknown]; Region: COG5429 394018040 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 394018041 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 394018042 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394018043 Coenzyme A binding pocket [chemical binding]; other site 394018044 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 394018045 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 394018046 NGR_c32430; ybhL leader (riboswitch) 394018047 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 394018048 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 394018049 FtsX-like permease family; Region: FtsX; pfam02687 394018050 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 394018051 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 394018052 Walker A/P-loop; other site 394018053 ATP binding site [chemical binding]; other site 394018054 Q-loop/lid; other site 394018055 ABC transporter signature motif; other site 394018056 Walker B; other site 394018057 D-loop; other site 394018058 H-loop/switch region; other site 394018059 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 394018060 active site 394018061 catalytic triad [active] 394018062 oxyanion hole [active] 394018063 switch loop; other site 394018064 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 394018065 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 394018066 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 394018067 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 394018068 Low molecular weight phosphatase family; Region: LMWPc; cd00115 394018069 active site 394018070 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 394018071 aromatic arch; other site 394018072 DCoH dimer interaction site [polypeptide binding]; other site 394018073 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 394018074 DCoH tetramer interaction site [polypeptide binding]; other site 394018075 substrate binding site [chemical binding]; other site 394018076 Uncharacterized conserved protein [Function unknown]; Region: COG3339 394018077 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 394018078 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 394018079 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394018080 FeS/SAM binding site; other site 394018081 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 394018082 argininosuccinate synthase; Provisional; Region: PRK13820 394018083 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 394018084 ANP binding site [chemical binding]; other site 394018085 Substrate Binding Site II [chemical binding]; other site 394018086 Substrate Binding Site I [chemical binding]; other site 394018087 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394018088 Major Facilitator Superfamily; Region: MFS_1; pfam07690 394018089 putative substrate translocation pore; other site 394018090 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 394018091 MarR family; Region: MarR_2; pfam12802 394018092 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 394018093 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 394018094 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 394018095 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 394018096 Thiamine pyrophosphokinase; Region: TPK; cd07995 394018097 active site 394018098 dimerization interface [polypeptide binding]; other site 394018099 thiamine binding site [chemical binding]; other site 394018100 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 394018101 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 394018102 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 394018103 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394018104 dimer interface [polypeptide binding]; other site 394018105 conserved gate region; other site 394018106 putative PBP binding loops; other site 394018107 ABC-ATPase subunit interface; other site 394018108 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394018109 dimer interface [polypeptide binding]; other site 394018110 conserved gate region; other site 394018111 putative PBP binding loops; other site 394018112 ABC-ATPase subunit interface; other site 394018113 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 394018114 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394018115 Walker A/P-loop; other site 394018116 ATP binding site [chemical binding]; other site 394018117 Q-loop/lid; other site 394018118 ABC transporter signature motif; other site 394018119 Walker B; other site 394018120 D-loop; other site 394018121 H-loop/switch region; other site 394018122 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 394018123 Peptidase family M48; Region: Peptidase_M48; pfam01435 394018124 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 394018125 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 394018126 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 394018127 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 394018128 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 394018129 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 394018130 Ferredoxin [Energy production and conversion]; Region: COG1146 394018131 4Fe-4S binding domain; Region: Fer4; pfam00037 394018132 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 394018133 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 394018134 RNA binding surface [nucleotide binding]; other site 394018135 DEAD/DEAH box helicase; Region: DEAD; pfam00270 394018136 ATP binding site [chemical binding]; other site 394018137 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 394018138 putative Mg++ binding site [ion binding]; other site 394018139 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394018140 nucleotide binding region [chemical binding]; other site 394018141 ATP-binding site [chemical binding]; other site 394018142 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 394018143 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 394018144 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 394018145 NAD(P) binding site [chemical binding]; other site 394018146 homotetramer interface [polypeptide binding]; other site 394018147 homodimer interface [polypeptide binding]; other site 394018148 active site 394018149 putative acyltransferase; Provisional; Region: PRK05790 394018150 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 394018151 dimer interface [polypeptide binding]; other site 394018152 active site 394018153 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 394018154 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 394018155 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 394018156 NGR_c32740; ROSE temperature sensitve riboswitch 394018157 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 394018158 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394018159 putative C-terminal domain interface [polypeptide binding]; other site 394018160 putative GSH binding site (G-site) [chemical binding]; other site 394018161 putative dimer interface [polypeptide binding]; other site 394018162 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 394018163 putative N-terminal domain interface [polypeptide binding]; other site 394018164 putative dimer interface [polypeptide binding]; other site 394018165 putative substrate binding pocket (H-site) [chemical binding]; other site 394018166 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 394018167 Transglycosylase; Region: Transgly; cl17702 394018168 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 394018169 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 394018170 substrate binding pocket [chemical binding]; other site 394018171 chain length determination region; other site 394018172 substrate-Mg2+ binding site; other site 394018173 catalytic residues [active] 394018174 aspartate-rich region 1; other site 394018175 active site lid residues [active] 394018176 aspartate-rich region 2; other site 394018177 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 394018178 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394018179 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394018180 homodimer interface [polypeptide binding]; other site 394018181 catalytic residue [active] 394018182 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 394018183 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 394018184 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 394018185 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394018186 putative substrate translocation pore; other site 394018187 Major Facilitator Superfamily; Region: MFS_1; pfam07690 394018188 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_3; cd07241 394018189 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394018190 putative metal binding site [ion binding]; other site 394018191 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 394018192 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 394018193 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 394018194 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 394018195 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 394018196 substrate binding pocket [chemical binding]; other site 394018197 membrane-bound complex binding site; other site 394018198 hinge residues; other site 394018199 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394018200 dimer interface [polypeptide binding]; other site 394018201 conserved gate region; other site 394018202 putative PBP binding loops; other site 394018203 ABC-ATPase subunit interface; other site 394018204 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 394018205 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394018206 Walker A/P-loop; other site 394018207 ATP binding site [chemical binding]; other site 394018208 Q-loop/lid; other site 394018209 ABC transporter signature motif; other site 394018210 Walker B; other site 394018211 D-loop; other site 394018212 H-loop/switch region; other site 394018213 pyruvate carboxylase; Reviewed; Region: PRK12999 394018214 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 394018215 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 394018216 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 394018217 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 394018218 active site 394018219 catalytic residues [active] 394018220 metal binding site [ion binding]; metal-binding site 394018221 homodimer binding site [polypeptide binding]; other site 394018222 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 394018223 carboxyltransferase (CT) interaction site; other site 394018224 biotinylation site [posttranslational modification]; other site 394018225 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 394018226 Autoinducer binding domain; Region: Autoind_bind; pfam03472 394018227 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 394018228 DNA binding residues [nucleotide binding] 394018229 dimerization interface [polypeptide binding]; other site 394018230 glucan exporter ATP-binding protein; Region: chvA; TIGR01192 394018231 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 394018232 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 394018233 Walker A/P-loop; other site 394018234 ATP binding site [chemical binding]; other site 394018235 Q-loop/lid; other site 394018236 ABC transporter signature motif; other site 394018237 Walker B; other site 394018238 D-loop; other site 394018239 H-loop/switch region; other site 394018240 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 394018241 OpgC protein; Region: OpgC_C; cl17858 394018242 Acyltransferase family; Region: Acyl_transf_3; pfam01757 394018243 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 394018244 Putative glucoamylase; Region: Glycoamylase; pfam10091 394018245 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 394018246 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 394018247 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 394018248 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 394018249 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394018250 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 394018251 dimerization interface [polypeptide binding]; other site 394018252 substrate binding pocket [chemical binding]; other site 394018253 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 394018254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 394018255 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 394018256 FAD binding domain; Region: FAD_binding_4; pfam01565 394018257 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 394018258 aldehyde dehydrogenase family 7 member; Region: PLN02315 394018259 tetrameric interface [polypeptide binding]; other site 394018260 NAD binding site [chemical binding]; other site 394018261 catalytic residues [active] 394018262 aspartate aminotransferase; Provisional; Region: PRK05764 394018263 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394018264 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394018265 homodimer interface [polypeptide binding]; other site 394018266 catalytic residue [active] 394018267 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 394018268 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394018269 non-specific DNA binding site [nucleotide binding]; other site 394018270 salt bridge; other site 394018271 sequence-specific DNA binding site [nucleotide binding]; other site 394018272 Cupin domain; Region: Cupin_2; pfam07883 394018273 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 394018274 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 394018275 inhibitor-cofactor binding pocket; inhibition site 394018276 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394018277 catalytic residue [active] 394018278 Protein of unknown function (DUF993); Region: DUF993; pfam06187 394018279 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394018280 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394018281 DNA binding site [nucleotide binding] 394018282 domain linker motif; other site 394018283 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 394018284 putative dimerization interface [polypeptide binding]; other site 394018285 putative ligand binding site [chemical binding]; other site 394018286 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394018287 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394018288 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394018289 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 394018290 Coenzyme A transferase; Region: CoA_trans; smart00882 394018291 Coenzyme A transferase; Region: CoA_trans; cl17247 394018292 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 394018293 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394018294 substrate binding site [chemical binding]; other site 394018295 oxyanion hole (OAH) forming residues; other site 394018296 trimer interface [polypeptide binding]; other site 394018297 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 394018298 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 394018299 NAD(P) binding site [chemical binding]; other site 394018300 catalytic residues [active] 394018301 Transcriptional regulators [Transcription]; Region: PurR; COG1609 394018302 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 394018303 DNA binding site [nucleotide binding] 394018304 domain linker motif; other site 394018305 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 394018306 ligand binding site [chemical binding]; other site 394018307 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394018308 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 394018309 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394018310 dimer interface [polypeptide binding]; other site 394018311 conserved gate region; other site 394018312 putative PBP binding loops; other site 394018313 ABC-ATPase subunit interface; other site 394018314 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394018315 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394018316 dimer interface [polypeptide binding]; other site 394018317 conserved gate region; other site 394018318 putative PBP binding loops; other site 394018319 ABC-ATPase subunit interface; other site 394018320 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 394018321 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394018322 Walker A/P-loop; other site 394018323 ATP binding site [chemical binding]; other site 394018324 Q-loop/lid; other site 394018325 ABC transporter signature motif; other site 394018326 Walker B; other site 394018327 D-loop; other site 394018328 H-loop/switch region; other site 394018329 TOBE domain; Region: TOBE_2; pfam08402 394018330 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 394018331 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 394018332 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 394018333 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394018334 NAD(P) binding site [chemical binding]; other site 394018335 active site 394018336 choline dehydrogenase; Validated; Region: PRK02106 394018337 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 394018338 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 394018339 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 394018340 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 394018341 MOFRL family; Region: MOFRL; pfam05161 394018342 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 394018343 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 394018344 active site 394018345 Zn binding site [ion binding]; other site 394018346 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 394018347 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 394018348 tartrate dehydrogenase; Region: TTC; TIGR02089 394018349 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 394018350 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 394018351 active site 394018352 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394018353 putative substrate translocation pore; other site 394018354 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 394018355 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 394018356 Transglycosylase SLT domain; Region: SLT_2; pfam13406 394018357 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 394018358 N-acetyl-D-glucosamine binding site [chemical binding]; other site 394018359 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 394018360 active site clefts [active] 394018361 zinc binding site [ion binding]; other site 394018362 dimer interface [polypeptide binding]; other site 394018363 pyridoxamine kinase; Validated; Region: PRK05756 394018364 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 394018365 pyridoxal binding site [chemical binding]; other site 394018366 dimer interface [polypeptide binding]; other site 394018367 ATP binding site [chemical binding]; other site 394018368 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 394018369 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 394018370 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 394018371 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 394018372 purine monophosphate binding site [chemical binding]; other site 394018373 dimer interface [polypeptide binding]; other site 394018374 putative catalytic residues [active] 394018375 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 394018376 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 394018377 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5360 394018378 NusB family; Region: NusB; pfam01029 394018379 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 394018380 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394018381 S-adenosylmethionine binding site [chemical binding]; other site 394018382 heat shock protein HtpX; Provisional; Region: PRK01345 394018383 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 394018384 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 394018385 acetyl-CoA synthetase; Provisional; Region: PRK00174 394018386 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 394018387 active site 394018388 CoA binding site [chemical binding]; other site 394018389 acyl-activating enzyme (AAE) consensus motif; other site 394018390 AMP binding site [chemical binding]; other site 394018391 acetate binding site [chemical binding]; other site 394018392 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 394018393 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 394018394 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 394018395 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394018396 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 394018397 dimerization interface [polypeptide binding]; other site 394018398 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 394018399 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 394018400 acyl-activating enzyme (AAE) consensus motif; other site 394018401 AMP binding site [chemical binding]; other site 394018402 active site 394018403 CoA binding site [chemical binding]; other site 394018404 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 394018405 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 394018406 catalytic residue [active] 394018407 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 394018408 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 394018409 HIGH motif; other site 394018410 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 394018411 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 394018412 active site 394018413 KMSKS motif; other site 394018414 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 394018415 tRNA binding surface [nucleotide binding]; other site 394018416 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5468 394018417 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 394018418 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 394018419 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 394018420 ParB-like nuclease domain; Region: ParBc; pfam02195 394018421 KorB domain; Region: KorB; pfam08535 394018422 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 394018423 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 394018424 P-loop; other site 394018425 Magnesium ion binding site [ion binding]; other site 394018426 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 394018427 Magnesium ion binding site [ion binding]; other site 394018428 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 394018429 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 394018430 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 394018431 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 394018432 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 394018433 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 394018434 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 394018435 trmE is a tRNA modification GTPase; Region: trmE; cd04164 394018436 G1 box; other site 394018437 GTP/Mg2+ binding site [chemical binding]; other site 394018438 Switch I region; other site 394018439 G2 box; other site 394018440 Switch II region; other site 394018441 G3 box; other site 394018442 G4 box; other site 394018443 G5 box; other site 394018444 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 394018445 transcription termination factor Rho; Provisional; Region: rho; PRK09376 394018446 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 394018447 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 394018448 RNA binding site [nucleotide binding]; other site 394018449 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 394018450 multimer interface [polypeptide binding]; other site 394018451 Walker A motif; other site 394018452 ATP binding site [chemical binding]; other site 394018453 Walker B motif; other site 394018454 Predicted membrane protein [Function unknown]; Region: COG1981 394018455 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 394018456 substrate binding site [chemical binding]; other site 394018457 active site 394018458 PEP synthetase regulatory protein; Provisional; Region: PRK05339 394018459 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 394018460 active site 394018461 dimer interface [polypeptide binding]; other site 394018462 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 394018463 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 394018464 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 394018465 shikimate binding site; other site 394018466 NAD(P) binding site [chemical binding]; other site 394018467 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 394018468 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 394018469 CoA-binding site [chemical binding]; other site 394018470 ATP-binding [chemical binding]; other site 394018471 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 394018472 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 394018473 active site 394018474 catalytic site [active] 394018475 substrate binding site [chemical binding]; other site 394018476 preprotein translocase subunit SecB; Validated; Region: PRK05751 394018477 SecA binding site; other site 394018478 Preprotein binding site; other site 394018479 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 394018480 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 394018481 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 394018482 MltA specific insert domain; Region: MltA; smart00925 394018483 3D domain; Region: 3D; pfam06725 394018484 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 394018485 Smr domain; Region: Smr; pfam01713 394018486 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394018487 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394018488 non-specific DNA binding site [nucleotide binding]; other site 394018489 salt bridge; other site 394018490 sequence-specific DNA binding site [nucleotide binding]; other site 394018491 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 394018492 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394018493 Mg2+ binding site [ion binding]; other site 394018494 G-X-G motif; other site 394018495 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 394018496 anchoring element; other site 394018497 dimer interface [polypeptide binding]; other site 394018498 ATP binding site [chemical binding]; other site 394018499 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 394018500 active site 394018501 putative metal-binding site [ion binding]; other site 394018502 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 394018503 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 394018504 putative FMN binding site [chemical binding]; other site 394018505 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 394018506 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 394018507 tetramerization interface [polypeptide binding]; other site 394018508 NAD(P) binding site [chemical binding]; other site 394018509 catalytic residues [active] 394018510 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 394018511 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 394018512 DNA-binding site [nucleotide binding]; DNA binding site 394018513 Transcriptional regulators [Transcription]; Region: GntR; COG1802 394018514 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 394018515 DNA-binding site [nucleotide binding]; DNA binding site 394018516 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 394018517 galactarate dehydratase; Region: galactar-dH20; TIGR03248 394018518 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 394018519 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 394018520 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394018521 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394018522 active site 394018523 catalytic tetrad [active] 394018524 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 394018525 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 394018526 putative ligand binding site [chemical binding]; other site 394018527 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 394018528 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394018529 Walker A/P-loop; other site 394018530 ATP binding site [chemical binding]; other site 394018531 Q-loop/lid; other site 394018532 ABC transporter signature motif; other site 394018533 Walker B; other site 394018534 D-loop; other site 394018535 H-loop/switch region; other site 394018536 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394018537 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394018538 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 394018539 TM-ABC transporter signature motif; other site 394018540 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH7; cd08261 394018541 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 394018542 putative NAD(P) binding site [chemical binding]; other site 394018543 catalytic Zn binding site [ion binding]; other site 394018544 structural Zn binding site [ion binding]; other site 394018545 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 394018546 Amidohydrolase; Region: Amidohydro_2; pfam04909 394018547 active site 394018548 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 394018549 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 394018550 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 394018551 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 394018552 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 394018553 active site 394018554 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 394018555 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 394018556 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394018557 catalytic residue [active] 394018558 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 394018559 substrate binding site [chemical binding]; other site 394018560 active site 394018561 catalytic residues [active] 394018562 heterodimer interface [polypeptide binding]; other site 394018563 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 394018564 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 394018565 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 394018566 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 394018567 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 394018568 catalytic residues [active] 394018569 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 394018570 Part of AAA domain; Region: AAA_19; pfam13245 394018571 Family description; Region: UvrD_C_2; pfam13538 394018572 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 394018573 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 394018574 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 394018575 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 394018576 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 394018577 Substrate binding site; other site 394018578 metal-binding site 394018579 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 394018580 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 394018581 Phosphotransferase enzyme family; Region: APH; pfam01636 394018582 PAS fold; Region: PAS_7; pfam12860 394018583 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 394018584 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394018585 dimer interface [polypeptide binding]; other site 394018586 phosphorylation site [posttranslational modification] 394018587 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394018588 ATP binding site [chemical binding]; other site 394018589 Mg2+ binding site [ion binding]; other site 394018590 G-X-G motif; other site 394018591 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 394018592 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 394018593 homotetramer interface [polypeptide binding]; other site 394018594 ligand binding site [chemical binding]; other site 394018595 catalytic site [active] 394018596 NAD binding site [chemical binding]; other site 394018597 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 394018598 dimerization domain swap beta strand [polypeptide binding]; other site 394018599 regulatory protein interface [polypeptide binding]; other site 394018600 active site 394018601 regulatory phosphorylation site [posttranslational modification]; other site 394018602 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 394018603 active pocket/dimerization site; other site 394018604 active site 394018605 phosphorylation site [posttranslational modification] 394018606 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 394018607 Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]; Region: HprK; COG1493 394018608 Hpr binding site; other site 394018609 active site 394018610 homohexamer subunit interaction site [polypeptide binding]; other site 394018611 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 394018612 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 394018613 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394018614 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 394018615 dimerization interface [polypeptide binding]; other site 394018616 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394018617 dimer interface [polypeptide binding]; other site 394018618 phosphorylation site [posttranslational modification] 394018619 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394018620 ATP binding site [chemical binding]; other site 394018621 Mg2+ binding site [ion binding]; other site 394018622 G-X-G motif; other site 394018623 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394018624 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394018625 active site 394018626 phosphorylation site [posttranslational modification] 394018627 intermolecular recognition site; other site 394018628 dimerization interface [polypeptide binding]; other site 394018629 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394018630 DNA binding site [nucleotide binding] 394018631 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 394018632 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 394018633 active site 394018634 substrate-binding site [chemical binding]; other site 394018635 metal-binding site [ion binding] 394018636 ATP binding site [chemical binding]; other site 394018637 hypothetical protein; Provisional; Region: PRK09256 394018638 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 394018639 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 394018640 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 394018641 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 394018642 pantothenate kinase; Provisional; Region: PRK05439 394018643 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 394018644 ATP-binding site [chemical binding]; other site 394018645 CoA-binding site [chemical binding]; other site 394018646 Mg2+-binding site [ion binding]; other site 394018647 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 394018648 metal binding site [ion binding]; metal-binding site 394018649 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 394018650 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 394018651 substrate binding site [chemical binding]; other site 394018652 glutamase interaction surface [polypeptide binding]; other site 394018653 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 394018654 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 394018655 catalytic residues [active] 394018656 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 394018657 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 394018658 putative active site [active] 394018659 oxyanion strand; other site 394018660 catalytic triad [active] 394018661 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 394018662 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 394018663 putative active site pocket [active] 394018664 4-fold oligomerization interface [polypeptide binding]; other site 394018665 metal binding residues [ion binding]; metal-binding site 394018666 3-fold/trimer interface [polypeptide binding]; other site 394018667 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 394018668 active site 394018669 HslU subunit interaction site [polypeptide binding]; other site 394018670 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 394018671 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 394018672 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 394018673 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 394018674 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394018675 Walker A motif; other site 394018676 ATP binding site [chemical binding]; other site 394018677 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 394018678 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 394018679 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 394018680 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 394018681 Cytochrome P450; Region: p450; cl12078 394018682 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 394018683 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 394018684 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 394018685 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 394018686 active site 394018687 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 394018688 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 394018689 Protein of unknown function (DUF1052); Region: DUF1052; pfam06319 394018690 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 394018691 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394018692 active site 394018693 phosphorylation site [posttranslational modification] 394018694 intermolecular recognition site; other site 394018695 dimerization interface [polypeptide binding]; other site 394018696 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 394018697 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394018698 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394018699 dimer interface [polypeptide binding]; other site 394018700 phosphorylation site [posttranslational modification] 394018701 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394018702 ATP binding site [chemical binding]; other site 394018703 Mg2+ binding site [ion binding]; other site 394018704 G-X-G motif; other site 394018705 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 394018706 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 394018707 ATP binding site [chemical binding]; other site 394018708 putative Mg++ binding site [ion binding]; other site 394018709 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 394018710 nucleotide binding region [chemical binding]; other site 394018711 ATP-binding site [chemical binding]; other site 394018712 Helicase associated domain (HA2); Region: HA2; pfam04408 394018713 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 394018714 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 394018715 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394018716 Walker A/P-loop; other site 394018717 ATP binding site [chemical binding]; other site 394018718 Q-loop/lid; other site 394018719 ABC transporter signature motif; other site 394018720 Walker B; other site 394018721 D-loop; other site 394018722 H-loop/switch region; other site 394018723 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4135 394018724 hypothetical protein; Provisional; Region: PRK11622 394018725 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 394018726 ornithine cyclodeaminase; Validated; Region: PRK06141 394018727 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 394018728 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 394018729 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 394018730 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 394018731 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 394018732 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 394018733 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 394018734 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 394018735 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 394018736 ligand binding site [chemical binding]; other site 394018737 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394018738 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 394018739 TM-ABC transporter signature motif; other site 394018740 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 394018741 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 394018742 TM-ABC transporter signature motif; other site 394018743 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 394018744 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 394018745 Walker A/P-loop; other site 394018746 ATP binding site [chemical binding]; other site 394018747 Q-loop/lid; other site 394018748 ABC transporter signature motif; other site 394018749 Walker B; other site 394018750 D-loop; other site 394018751 H-loop/switch region; other site 394018752 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 394018753 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 394018754 Walker A/P-loop; other site 394018755 ATP binding site [chemical binding]; other site 394018756 Q-loop/lid; other site 394018757 ABC transporter signature motif; other site 394018758 Walker B; other site 394018759 D-loop; other site 394018760 H-loop/switch region; other site 394018761 aspartate aminotransferase; Provisional; Region: PRK06107 394018762 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394018763 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394018764 homodimer interface [polypeptide binding]; other site 394018765 catalytic residue [active] 394018766 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 394018767 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 394018768 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 394018769 putative dimerization interface [polypeptide binding]; other site 394018770 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 394018771 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 394018772 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 394018773 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 394018774 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 394018775 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 394018776 classical (c) SDRs; Region: SDR_c; cd05233 394018777 NAD(P) binding site [chemical binding]; other site 394018778 active site 394018779 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 394018780 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 394018781 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394018782 dimer interface [polypeptide binding]; other site 394018783 phosphorylation site [posttranslational modification] 394018784 Response regulator receiver domain; Region: Response_reg; pfam00072 394018785 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394018786 active site 394018787 phosphorylation site [posttranslational modification] 394018788 intermolecular recognition site; other site 394018789 dimerization interface [polypeptide binding]; other site 394018790 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 394018791 cyclase homology domain; Region: CHD; cd07302 394018792 nucleotidyl binding site; other site 394018793 metal binding site [ion binding]; metal-binding site 394018794 dimer interface [polypeptide binding]; other site 394018795 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 394018796 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394018797 active site 394018798 phosphorylation site [posttranslational modification] 394018799 intermolecular recognition site; other site 394018800 dimerization interface [polypeptide binding]; other site 394018801 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 394018802 dimerization interface [polypeptide binding]; other site 394018803 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 394018804 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394018805 putative active site [active] 394018806 heme pocket [chemical binding]; other site 394018807 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 394018808 dimer interface [polypeptide binding]; other site 394018809 phosphorylation site [posttranslational modification] 394018810 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394018811 ATP binding site [chemical binding]; other site 394018812 Mg2+ binding site [ion binding]; other site 394018813 G-X-G motif; other site 394018814 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394018815 Response regulator receiver domain; Region: Response_reg; pfam00072 394018816 active site 394018817 phosphorylation site [posttranslational modification] 394018818 intermolecular recognition site; other site 394018819 dimerization interface [polypeptide binding]; other site 394018820 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 394018821 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394018822 active site 394018823 phosphorylation site [posttranslational modification] 394018824 intermolecular recognition site; other site 394018825 dimerization interface [polypeptide binding]; other site 394018826 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 394018827 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 394018828 Heavy-metal-associated domain; Region: HMA; pfam00403 394018829 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 394018830 Soluble P-type ATPase [General function prediction only]; Region: COG4087 394018831 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 394018832 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 394018833 Walker A/P-loop; other site 394018834 ATP binding site [chemical binding]; other site 394018835 Q-loop/lid; other site 394018836 ABC transporter signature motif; other site 394018837 Walker B; other site 394018838 D-loop; other site 394018839 H-loop/switch region; other site 394018840 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 394018841 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394018842 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 394018843 TM-ABC transporter signature motif; other site 394018844 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 394018845 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 394018846 TM-ABC transporter signature motif; other site 394018847 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 394018848 active site 394018849 catalytic motif [active] 394018850 Zn binding site [ion binding]; other site 394018851 purine nucleoside phosphorylase; Provisional; Region: PRK08202 394018852 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 394018853 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 394018854 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 394018855 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 394018856 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 394018857 catalytic motif [active] 394018858 Catalytic residue [active] 394018859 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 394018860 active site 394018861 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394018862 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394018863 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 394018864 adenosine deaminase; Provisional; Region: PRK09358 394018865 active site 394018866 phosphopentomutase; Provisional; Region: PRK05362 394018867 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 394018868 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 394018869 TadE-like protein; Region: TadE; pfam07811 394018870 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 394018871 TadE-like protein; Region: TadE; pfam07811 394018872 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 394018873 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 394018874 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 394018875 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 394018876 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 394018877 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 394018878 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 394018879 BON domain; Region: BON; pfam04972 394018880 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 394018881 Type IV pili component [Cell motility and secretion]; Region: COG5461 394018882 pilus (Caulobacter type) biogenesis lipoprotein CpaD; Region: pilus_cpaD; TIGR02522 394018883 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 394018884 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 394018885 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 394018886 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 394018887 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 394018888 ATP binding site [chemical binding]; other site 394018889 Walker A motif; other site 394018890 hexamer interface [polypeptide binding]; other site 394018891 Walker B motif; other site 394018892 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 394018893 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 394018894 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 394018895 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 394018896 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 394018897 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 394018898 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 394018899 TPR motif; other site 394018900 binding surface 394018901 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 394018902 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 394018903 interface (dimer of trimers) [polypeptide binding]; other site 394018904 Substrate-binding/catalytic site; other site 394018905 Zn-binding sites [ion binding]; other site 394018906 Transcriptional regulators [Transcription]; Region: MarR; COG1846 394018907 MarR family; Region: MarR_2; pfam12802 394018908 Bacterial SH3 domain; Region: SH3_3; cl17532 394018909 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 394018910 NlpC/P60 family; Region: NLPC_P60; cl17555 394018911 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 394018912 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 394018913 putative ligand binding site [chemical binding]; other site 394018914 NAD binding site [chemical binding]; other site 394018915 dimerization interface [polypeptide binding]; other site 394018916 catalytic site [active] 394018917 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 394018918 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394018919 Walker A/P-loop; other site 394018920 ATP binding site [chemical binding]; other site 394018921 Q-loop/lid; other site 394018922 ABC transporter signature motif; other site 394018923 Walker B; other site 394018924 D-loop; other site 394018925 H-loop/switch region; other site 394018926 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 394018927 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 394018928 Walker A/P-loop; other site 394018929 ATP binding site [chemical binding]; other site 394018930 Q-loop/lid; other site 394018931 ABC transporter signature motif; other site 394018932 Walker B; other site 394018933 D-loop; other site 394018934 H-loop/switch region; other site 394018935 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 394018936 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 394018937 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394018938 dimer interface [polypeptide binding]; other site 394018939 conserved gate region; other site 394018940 putative PBP binding loops; other site 394018941 ABC-ATPase subunit interface; other site 394018942 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 394018943 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394018944 dimer interface [polypeptide binding]; other site 394018945 conserved gate region; other site 394018946 putative PBP binding loops; other site 394018947 ABC-ATPase subunit interface; other site 394018948 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 394018949 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 394018950 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 394018951 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 394018952 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 394018953 active site 394018954 dimer interfaces [polypeptide binding]; other site 394018955 catalytic residues [active] 394018956 glucokinase; Provisional; Region: glk; PRK00292 394018957 glucokinase, proteobacterial type; Region: glk; TIGR00749 394018958 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 394018959 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 394018960 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 394018961 Walker A/P-loop; other site 394018962 ATP binding site [chemical binding]; other site 394018963 Q-loop/lid; other site 394018964 ABC transporter signature motif; other site 394018965 Walker B; other site 394018966 D-loop; other site 394018967 H-loop/switch region; other site 394018968 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 394018969 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 394018970 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 394018971 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 394018972 catalytic core [active] 394018973 Helix-turn-helix domain; Region: HTH_18; pfam12833 394018974 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 394018975 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 394018976 DNA binding site [nucleotide binding] 394018977 active site 394018978 Integral membrane protein [Function unknown]; Region: COG5488 394018979 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 394018980 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 394018981 minor groove reading motif; other site 394018982 helix-hairpin-helix signature motif; other site 394018983 substrate binding pocket [chemical binding]; other site 394018984 active site 394018985 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 394018986 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394018987 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394018988 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_22; cd08359 394018989 putative dimer interface [polypeptide binding]; other site 394018990 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394018991 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 394018992 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 394018993 substrate binding site [chemical binding]; other site 394018994 ATP binding site [chemical binding]; other site 394018995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 394018996 Bacterial SH3 domain; Region: SH3_4; pfam06347 394018997 Bacterial SH3 domain; Region: SH3_4; pfam06347 394018998 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 394018999 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 394019000 dimerization interface [polypeptide binding]; other site 394019001 ligand binding site [chemical binding]; other site 394019002 NADP binding site [chemical binding]; other site 394019003 catalytic site [active] 394019004 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394019005 Coenzyme A binding pocket [chemical binding]; other site 394019006 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 394019007 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 394019008 ATP binding site [chemical binding]; other site 394019009 substrate interface [chemical binding]; other site 394019010 recombination protein F; Reviewed; Region: recF; PRK00064 394019011 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 394019012 Walker A/P-loop; other site 394019013 ATP binding site [chemical binding]; other site 394019014 Q-loop/lid; other site 394019015 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394019016 ABC transporter signature motif; other site 394019017 Walker B; other site 394019018 D-loop; other site 394019019 H-loop/switch region; other site 394019020 Protein of unknown function DUF47; Region: PhoU_div; pfam01865 394019021 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 394019022 Uncharacterized conserved protein [Function unknown]; Region: COG5588 394019023 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 394019024 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 394019025 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 394019026 Transposase; Region: DEDD_Tnp_IS110; pfam01548 394019027 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 394019028 chaperone protein DnaJ; Provisional; Region: PRK10767 394019029 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 394019030 HSP70 interaction site [polypeptide binding]; other site 394019031 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 394019032 substrate binding site [polypeptide binding]; other site 394019033 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 394019034 Zn binding sites [ion binding]; other site 394019035 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 394019036 dimer interface [polypeptide binding]; other site 394019037 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 394019038 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 394019039 nucleotide binding site [chemical binding]; other site 394019040 NEF interaction site [polypeptide binding]; other site 394019041 SBD interface [polypeptide binding]; other site 394019042 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 394019043 Transglycosylase; Region: Transgly; pfam00912 394019044 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 394019045 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 394019046 EamA-like transporter family; Region: EamA; pfam00892 394019047 EamA-like transporter family; Region: EamA; pfam00892 394019048 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 394019049 Predicted integral membrane protein [Function unknown]; Region: COG0392 394019050 hypothetical protein; Validated; Region: PRK09104 394019051 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 394019052 metal binding site [ion binding]; metal-binding site 394019053 putative dimer interface [polypeptide binding]; other site 394019054 Transcriptional regulators [Transcription]; Region: MarR; COG1846 394019055 MarR family; Region: MarR_2; pfam12802 394019056 5'-3' exonuclease; Region: 53EXOc; smart00475 394019057 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 394019058 active site 394019059 metal binding site 1 [ion binding]; metal-binding site 394019060 putative 5' ssDNA interaction site; other site 394019061 metal binding site 3; metal-binding site 394019062 metal binding site 2 [ion binding]; metal-binding site 394019063 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 394019064 putative DNA binding site [nucleotide binding]; other site 394019065 putative metal binding site [ion binding]; other site 394019066 DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]; Region: PolA; COG0749 394019067 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 394019068 active site 394019069 catalytic site [active] 394019070 substrate binding site [chemical binding]; other site 394019071 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 394019072 active site 394019073 DNA binding site [nucleotide binding] 394019074 catalytic site [active] 394019075 CheB methylesterase; Region: CheB_methylest; pfam01339 394019076 potential frameshift: common BLAST hit: gi|16264244|ref|NP_437036.1| putative chemotaxis methyltransferase protein 394019077 Chemotaxis response regulator containing a CheY-like receiver domain and a methylesterase domain [Cell motility and secretion / Signal transduction mechanisms]; Region: CheB; COG2201 394019078 CheB methylesterase; Region: CheB_methylest; pfam01339 394019079 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 394019080 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 394019081 PAS domain; Region: PAS_10; pfam13596 394019082 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 394019083 putative active site [active] 394019084 heme pocket [chemical binding]; other site 394019085 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 394019086 PAS domain; Region: PAS_9; pfam13426 394019087 putative active site [active] 394019088 heme pocket [chemical binding]; other site 394019089 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 394019090 HWE histidine kinase; Region: HWE_HK; pfam07536 394019091 Response regulator receiver domain; Region: Response_reg; pfam00072 394019092 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 394019093 active site 394019094 phosphorylation site [posttranslational modification] 394019095 dimerization interface [polypeptide binding]; other site 394019096 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 394019097 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 394019098 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 394019099 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 394019100 Protein export membrane protein; Region: SecD_SecF; cl14618 394019101 Protein export membrane protein; Region: SecD_SecF; cl14618 394019102 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 394019103 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 394019104 HlyD family secretion protein; Region: HlyD_3; pfam13437 394019105 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 394019106 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 394019107 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394019108 Walker A/P-loop; other site 394019109 ATP binding site [chemical binding]; other site 394019110 Q-loop/lid; other site 394019111 ABC transporter signature motif; other site 394019112 Walker B; other site 394019113 D-loop; other site 394019114 H-loop/switch region; other site 394019115 TOBE domain; Region: TOBE_2; pfam08402 394019116 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394019117 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394019118 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394019119 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394019120 dimer interface [polypeptide binding]; other site 394019121 conserved gate region; other site 394019122 putative PBP binding loops; other site 394019123 ABC-ATPase subunit interface; other site 394019124 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 394019125 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394019126 dimer interface [polypeptide binding]; other site 394019127 conserved gate region; other site 394019128 putative PBP binding loops; other site 394019129 ABC-ATPase subunit interface; other site 394019130 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394019131 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 394019132 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 394019133 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 394019134 putative active site [active] 394019135 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 394019136 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 394019137 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 394019138 DNA-binding site [nucleotide binding]; DNA binding site 394019139 UTRA domain; Region: UTRA; pfam07702 394019140 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 394019141 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 394019142 dimer interface [polypeptide binding]; other site 394019143 active site 394019144 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 394019145 dimer interface [polypeptide binding]; other site 394019146 active site 394019147 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 394019148 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 394019149 active site 394019150 dimer interface [polypeptide binding]; other site 394019151 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 394019152 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 394019153 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 394019154 nucleotide binding site [chemical binding]; other site 394019155 hypothetical protein; Provisional; Region: PRK06102 394019156 Amidase; Region: Amidase; cl11426 394019157 CysZ-like protein; Reviewed; Region: PRK12768 394019158 hypothetical protein; Provisional; Region: PRK00736 394019159 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 394019160 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 394019161 ligand binding site [chemical binding]; other site 394019162 methionine sulfoxide reductase A; Provisional; Region: PRK00058 394019163 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 394019164 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 394019165 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 394019166 Walker A/P-loop; other site 394019167 ATP binding site [chemical binding]; other site 394019168 Q-loop/lid; other site 394019169 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 394019170 ABC transporter signature motif; other site 394019171 Walker B; other site 394019172 D-loop; other site 394019173 ABC transporter; Region: ABC_tran_2; pfam12848 394019174 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 394019175 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 394019176 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 394019177 putative hydrophobic ligand binding site [chemical binding]; other site 394019178 BON domain; Region: BON; pfam04972 394019179 Predicted permeases [General function prediction only]; Region: COG0679 394019180 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 394019181 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 394019182 homodimer interface [polypeptide binding]; other site 394019183 substrate-cofactor binding pocket; other site 394019184 catalytic residue [active] 394019185 Cytochrome c2 [Energy production and conversion]; Region: COG3474 394019186 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 394019187 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 394019188 Ligand binding site; other site 394019189 oligomer interface; other site 394019190 prephenate dehydratase; Provisional; Region: PRK11899 394019191 Prephenate dehydratase; Region: PDT; pfam00800 394019192 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 394019193 putative L-Phe binding site [chemical binding]; other site 394019194 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 394019195 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_11; cd07261 394019196 putative dimer interface [polypeptide binding]; other site 394019197 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394019198 Predicted transcriptional regulator [Transcription]; Region: COG2378 394019199 HTH domain; Region: HTH_11; pfam08279 394019200 WYL domain; Region: WYL; pfam13280 394019201 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 394019202 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 394019203 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 394019204 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 394019205 putative NADH binding site [chemical binding]; other site 394019206 putative active site [active] 394019207 nudix motif; other site 394019208 putative metal binding site [ion binding]; other site 394019209 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 394019210 nucleotide binding site/active site [active] 394019211 HIT family signature motif; other site 394019212 catalytic residue [active] 394019213 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 394019214 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394019215 Walker A motif; other site 394019216 ATP binding site [chemical binding]; other site 394019217 Walker B motif; other site 394019218 arginine finger; other site 394019219 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 394019220 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 394019221 hypothetical protein; Validated; Region: PRK00153 394019222 recombination protein RecR; Reviewed; Region: recR; PRK00076 394019223 RecR protein; Region: RecR; pfam02132 394019224 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 394019225 putative active site [active] 394019226 putative metal-binding site [ion binding]; other site 394019227 tetramer interface [polypeptide binding]; other site 394019228 Transglycosylase SLT domain; Region: SLT_2; pfam13406 394019229 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 394019230 N-acetyl-D-glucosamine binding site [chemical binding]; other site 394019231 catalytic residue [active] 394019232 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 394019233 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 394019234 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 394019235 ligand binding site [chemical binding]; other site 394019236 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 394019237 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 394019238 Transmembrane secretion effector; Region: MFS_3; pfam05977 394019239 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394019240 putative substrate translocation pore; other site 394019241 ribosome maturation protein RimP; Reviewed; Region: PRK00092 394019242 Sm and related proteins; Region: Sm_like; cl00259 394019243 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 394019244 putative oligomer interface [polypeptide binding]; other site 394019245 putative RNA binding site [nucleotide binding]; other site 394019246 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 394019247 NusA N-terminal domain; Region: NusA_N; pfam08529 394019248 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 394019249 RNA binding site [nucleotide binding]; other site 394019250 homodimer interface [polypeptide binding]; other site 394019251 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 394019252 G-X-X-G motif; other site 394019253 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 394019254 G-X-X-G motif; other site 394019255 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 394019256 hypothetical protein; Provisional; Region: PRK09190 394019257 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 394019258 putative RNA binding cleft [nucleotide binding]; other site 394019259 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 394019260 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 394019261 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 394019262 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 394019263 G1 box; other site 394019264 putative GEF interaction site [polypeptide binding]; other site 394019265 GTP/Mg2+ binding site [chemical binding]; other site 394019266 Switch I region; other site 394019267 G2 box; other site 394019268 G3 box; other site 394019269 Switch II region; other site 394019270 G4 box; other site 394019271 G5 box; other site 394019272 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 394019273 Translation-initiation factor 2; Region: IF-2; pfam11987 394019274 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 394019275 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 394019276 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 394019277 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 394019278 RNA binding site [nucleotide binding]; other site 394019279 active site 394019280 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 394019281 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 394019282 HWE histidine kinase; Region: HWE_HK; pfam07536 394019283 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 394019284 16S/18S rRNA binding site [nucleotide binding]; other site 394019285 S13e-L30e interaction site [polypeptide binding]; other site 394019286 25S rRNA binding site [nucleotide binding]; other site 394019287 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 394019288 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 394019289 RNase E interface [polypeptide binding]; other site 394019290 trimer interface [polypeptide binding]; other site 394019291 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 394019292 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 394019293 RNase E interface [polypeptide binding]; other site 394019294 trimer interface [polypeptide binding]; other site 394019295 active site 394019296 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 394019297 putative nucleic acid binding region [nucleotide binding]; other site 394019298 G-X-X-G motif; other site 394019299 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 394019300 RNA binding site [nucleotide binding]; other site 394019301 domain interface; other site 394019302 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 394019303 Methyltransferase small domain; Region: MTS; pfam05175 394019304 S-adenosylmethionine binding site [chemical binding]; other site 394019305 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 394019306 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 394019307 NAD binding site [chemical binding]; other site 394019308 homotetramer interface [polypeptide binding]; other site 394019309 homodimer interface [polypeptide binding]; other site 394019310 substrate binding site [chemical binding]; other site 394019311 active site 394019312 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 394019313 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 394019314 dimer interface [polypeptide binding]; other site 394019315 active site 394019316 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 394019317 active site 1 [active] 394019318 dimer interface [polypeptide binding]; other site 394019319 active site 2 [active] 394019320 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 394019321 metal binding site 2 [ion binding]; metal-binding site 394019322 putative DNA binding helix; other site 394019323 metal binding site 1 [ion binding]; metal-binding site 394019324 dimer interface [polypeptide binding]; other site 394019325 Predicted membrane protein [Function unknown]; Region: COG2860 394019326 UPF0126 domain; Region: UPF0126; pfam03458 394019327 UPF0126 domain; Region: UPF0126; pfam03458 394019328 Uncharacterized conserved protein [Function unknown]; Region: COG1434 394019329 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 394019330 putative active site [active] 394019331 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 394019332 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 394019333 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 394019334 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 394019335 hinge; other site 394019336 active site 394019337 cytidylate kinase; Provisional; Region: cmk; PRK00023 394019338 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 394019339 CMP-binding site; other site 394019340 The sites determining sugar specificity; other site 394019341 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 394019342 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 394019343 RNA binding site [nucleotide binding]; other site 394019344 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 394019345 RNA binding site [nucleotide binding]; other site 394019346 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 394019347 RNA binding site [nucleotide binding]; other site 394019348 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 394019349 RNA binding site [nucleotide binding]; other site 394019350 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 394019351 RNA binding site [nucleotide binding]; other site 394019352 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 394019353 RNA binding site [nucleotide binding]; other site 394019354 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 394019355 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 394019356 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 394019357 dimerization interface [polypeptide binding]; other site 394019358 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 394019359 cyclase homology domain; Region: CHD; cd07302 394019360 nucleotidyl binding site; other site 394019361 metal binding site [ion binding]; metal-binding site 394019362 dimer interface [polypeptide binding]; other site 394019363 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_8; cd12167 394019364 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 394019365 putative ligand binding site [chemical binding]; other site 394019366 putative NAD binding site [chemical binding]; other site 394019367 catalytic site [active] 394019368 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 394019369 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 394019370 putative active site [active] 394019371 putative substrate binding site [chemical binding]; other site 394019372 catalytic site [active] 394019373 Predicted membrane protein [Function unknown]; Region: COG1238 394019374 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 394019375 Predicted membrane protein [Function unknown]; Region: COG2259 394019376 Uncharacterized conserved protein [Function unknown]; Region: COG3791 394019377 maltose O-acetyltransferase; Provisional; Region: PRK10092 394019378 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 394019379 active site 394019380 substrate binding site [chemical binding]; other site 394019381 trimer interface [polypeptide binding]; other site 394019382 CoA binding site [chemical binding]; other site 394019383 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 394019384 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 394019385 Coenzyme A binding pocket [chemical binding]; other site 394019386 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 394019387 GIY-YIG motif/motif A; other site 394019388 putative active site [active] 394019389 putative metal binding site [ion binding]; other site 394019390 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 394019391 GIY-YIG motif/motif A; other site 394019392 active site 394019393 catalytic site [active] 394019394 CcdB protein; Region: CcdB; cl03380 394019395 Post-segregation antitoxin (ccd killing mechanism protein) encoded by the F plasmid [General function prediction only]; Region: COG5302 394019396 GTP-binding protein LepA; Provisional; Region: PRK05433 394019397 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 394019398 G1 box; other site 394019399 putative GEF interaction site [polypeptide binding]; other site 394019400 GTP/Mg2+ binding site [chemical binding]; other site 394019401 Switch I region; other site 394019402 G2 box; other site 394019403 G3 box; other site 394019404 Switch II region; other site 394019405 G4 box; other site 394019406 G5 box; other site 394019407 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 394019408 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 394019409 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 394019410 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 394019411 putative substrate translocation pore; other site 394019412 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 394019413 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394019414 non-specific DNA binding site [nucleotide binding]; other site 394019415 salt bridge; other site 394019416 sequence-specific DNA binding site [nucleotide binding]; other site 394019417 Cupin domain; Region: Cupin_2; pfam07883 394019418 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 394019419 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394019420 Coenzyme A binding pocket [chemical binding]; other site 394019421 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 394019422 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 394019423 active site 394019424 Zn binding site [ion binding]; other site 394019425 Uncharacterized ABC-type transport system, permease components [General function prediction only]; Region: COG3932 394019426 putative outer membrane lipoprotein; Provisional; Region: PRK10510 394019427 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 394019428 ligand binding site [chemical binding]; other site 394019429 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 394019430 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 394019431 FeS/SAM binding site; other site 394019432 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]; Region: COG2269 394019433 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 394019434 motif 1; other site 394019435 dimer interface [polypeptide binding]; other site 394019436 active site 394019437 motif 2; other site 394019438 motif 3; other site 394019439 elongation factor P; Validated; Region: PRK00529 394019440 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 394019441 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 394019442 RNA binding site [nucleotide binding]; other site 394019443 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 394019444 RNA binding site [nucleotide binding]; other site 394019445 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 394019446 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394019447 S-adenosylmethionine binding site [chemical binding]; other site 394019448 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 394019449 diiron binding motif [ion binding]; other site 394019450 Uncharacterized conserved protein [Function unknown]; Region: COG1633 394019451 CCC1-related protein family; Region: CCC1_like_1; cd02437 394019452 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 394019453 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 394019454 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 394019455 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 394019456 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 394019457 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 394019458 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 394019459 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 394019460 active site 394019461 phosphorylation site [posttranslational modification] 394019462 intermolecular recognition site; other site 394019463 dimerization interface [polypeptide binding]; other site 394019464 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 394019465 DNA binding site [nucleotide binding] 394019466 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 394019467 ATP binding site [chemical binding]; other site 394019468 Mg2+ binding site [ion binding]; other site 394019469 G-X-G motif; other site 394019470 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 394019471 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 394019472 23S rRNA binding site [nucleotide binding]; other site 394019473 L21 binding site [polypeptide binding]; other site 394019474 L13 binding site [polypeptide binding]; other site 394019475 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 394019476 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 394019477 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 394019478 dimer interface [polypeptide binding]; other site 394019479 motif 1; other site 394019480 active site 394019481 motif 2; other site 394019482 motif 3; other site 394019483 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 394019484 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 394019485 putative tRNA-binding site [nucleotide binding]; other site 394019486 B3/4 domain; Region: B3_4; pfam03483 394019487 tRNA synthetase B5 domain; Region: B5; smart00874 394019488 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 394019489 dimer interface [polypeptide binding]; other site 394019490 motif 1; other site 394019491 motif 3; other site 394019492 motif 2; other site 394019493 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 394019494 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 394019495 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 394019496 dimer interface [polypeptide binding]; other site 394019497 putative metal binding site [ion binding]; other site 394019498 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 394019499 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 394019500 dimerization interface [polypeptide binding]; other site 394019501 metal binding site [ion binding]; metal-binding site 394019502 short chain dehydrogenase; Provisional; Region: PRK07478 394019503 classical (c) SDRs; Region: SDR_c; cd05233 394019504 NAD(P) binding site [chemical binding]; other site 394019505 active site 394019506 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 394019507 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 394019508 active site 394019509 catalytic tetrad [active] 394019510 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394019511 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394019512 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394019513 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 394019514 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 394019515 generic binding surface II; other site 394019516 generic binding surface I; other site 394019517 potential frameshift: common BLAST hit: gi|150398685|ref|YP_001329152.1| NAD(P)H dehydrogenase (quinone) 394019518 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 394019519 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 394019520 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 394019521 MarR family; Region: MarR_2; cl17246 394019522 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 394019523 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 394019524 EamA-like transporter family; Region: EamA; pfam00892 394019525 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 394019526 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 394019527 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394019528 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 394019529 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 394019530 N-terminal domain interface [polypeptide binding]; other site 394019531 dimer interface [polypeptide binding]; other site 394019532 substrate binding pocket (H-site) [chemical binding]; other site 394019533 MarR family; Region: MarR_2; pfam12802 394019534 Transcriptional regulators [Transcription]; Region: MarR; COG1846 394019535 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 394019536 putative deacylase active site [active] 394019537 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 394019538 ArsC family; Region: ArsC; pfam03960 394019539 putative catalytic residues [active] 394019540 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 394019541 Uncharacterized conserved protein [Function unknown]; Region: COG1284 394019542 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 394019543 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 394019544 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394019545 homodimer interface [polypeptide binding]; other site 394019546 catalytic residue [active] 394019547 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394019548 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394019549 dimerization interface [polypeptide binding]; other site 394019550 putative DNA binding site [nucleotide binding]; other site 394019551 putative Zn2+ binding site [ion binding]; other site 394019552 AsnC family; Region: AsnC_trans_reg; pfam01037 394019553 Uncharacterized conserved protein [Function unknown]; Region: COG4715 394019554 GMP synthase; Reviewed; Region: guaA; PRK00074 394019555 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 394019556 AMP/PPi binding site [chemical binding]; other site 394019557 candidate oxyanion hole; other site 394019558 catalytic triad [active] 394019559 potential glutamine specificity residues [chemical binding]; other site 394019560 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 394019561 ATP Binding subdomain [chemical binding]; other site 394019562 Ligand Binding sites [chemical binding]; other site 394019563 Dimerization subdomain; other site 394019564 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase, putative; Region: MTA/SAH-nuc-hyp; TIGR01705 394019565 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK06026 394019566 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 394019567 CoenzymeA binding site [chemical binding]; other site 394019568 subunit interaction site [polypeptide binding]; other site 394019569 PHB binding site; other site 394019570 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 394019571 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394019572 Coenzyme A binding pocket [chemical binding]; other site 394019573 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3490 394019574 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 394019575 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 394019576 Cl binding site [ion binding]; other site 394019577 oligomer interface [polypeptide binding]; other site 394019578 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG3489 394019579 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 394019580 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 394019581 Uncharacterized iron-regulated protein [Inorganic ion transport and metabolism]; Region: IrpA; COG3487 394019582 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 394019583 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394019584 S-adenosylmethionine binding site [chemical binding]; other site 394019585 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 394019586 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 394019587 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394019588 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 394019589 putative NAD(P) binding site [chemical binding]; other site 394019590 epoxyqueuosine reductase; Region: TIGR00276 394019591 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 394019592 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 394019593 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 394019594 C-terminal domain interface [polypeptide binding]; other site 394019595 GSH binding site (G-site) [chemical binding]; other site 394019596 dimer interface [polypeptide binding]; other site 394019597 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 394019598 N-terminal domain interface [polypeptide binding]; other site 394019599 dimer interface [polypeptide binding]; other site 394019600 substrate binding pocket (H-site) [chemical binding]; other site 394019601 Undecaprenyl pyrophosphate phosphatase [Lipid transport and metabolism]; Region: BacA; COG1968 394019602 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 394019603 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 394019604 putative NAD(P) binding site [chemical binding]; other site 394019605 active site 394019606 Uncharacterized conserved protein [Function unknown]; Region: COG5470 394019607 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 394019608 active site 394019609 dimer interface [polypeptide binding]; other site 394019610 Broad specificity phosphatase PhoE and related phosphatases [General function prediction only]; Region: phoE; COG0406 394019611 catalytic core [active] 394019612 DDE superfamily endonuclease; Region: DDE_3; pfam13358 394019613 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 394019614 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394019615 S-adenosylmethionine binding site [chemical binding]; other site 394019616 DNA polymerase III subunit beta; Validated; Region: PRK05643 394019617 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 394019618 putative DNA binding surface [nucleotide binding]; other site 394019619 dimer interface [polypeptide binding]; other site 394019620 beta-clamp/clamp loader binding surface; other site 394019621 beta-clamp/translesion DNA polymerase binding surface; other site 394019622 Predicted methyltransferases [General function prediction only]; Region: COG0313 394019623 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 394019624 putative SAM binding site [chemical binding]; other site 394019625 putative homodimer interface [polypeptide binding]; other site 394019626 hypothetical protein; Reviewed; Region: PRK12497 394019627 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 394019628 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 394019629 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394019630 dimer interface [polypeptide binding]; other site 394019631 conserved gate region; other site 394019632 ABC-ATPase subunit interface; other site 394019633 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 394019634 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 394019635 dimer interface [polypeptide binding]; other site 394019636 conserved gate region; other site 394019637 putative PBP binding loops; other site 394019638 ABC-ATPase subunit interface; other site 394019639 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 394019640 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 394019641 Walker A/P-loop; other site 394019642 ATP binding site [chemical binding]; other site 394019643 Q-loop/lid; other site 394019644 ABC transporter signature motif; other site 394019645 Walker B; other site 394019646 D-loop; other site 394019647 H-loop/switch region; other site 394019648 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 394019649 putative catalytic site [active] 394019650 putative phosphate binding site [ion binding]; other site 394019651 putative metal binding site [ion binding]; other site 394019652 glutathione synthetase; Provisional; Region: PRK05246 394019653 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 394019654 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 394019655 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 394019656 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 394019657 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 394019658 Walker A motif; other site 394019659 ATP binding site [chemical binding]; other site 394019660 Walker B motif; other site 394019661 arginine finger; other site 394019662 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 394019663 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 394019664 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 394019665 dimer interface [polypeptide binding]; other site 394019666 pyridoxal 5'-phosphate binding site [chemical binding]; other site 394019667 catalytic residue [active] 394019668 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 394019669 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 394019670 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 394019671 putative active site pocket [active] 394019672 dimerization interface [polypeptide binding]; other site 394019673 putative catalytic residue [active] 394019674 NIPSNAP; Region: NIPSNAP; pfam07978 394019675 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 394019676 EamA-like transporter family; Region: EamA; pfam00892 394019677 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 394019678 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 394019679 putative DNA binding site [nucleotide binding]; other site 394019680 putative Zn2+ binding site [ion binding]; other site 394019681 AsnC family; Region: AsnC_trans_reg; pfam01037 394019682 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 394019683 trimer interface [polypeptide binding]; other site 394019684 active site 394019685 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 394019686 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 394019687 G1 box; other site 394019688 putative GEF interaction site [polypeptide binding]; other site 394019689 GTP/Mg2+ binding site [chemical binding]; other site 394019690 Switch I region; other site 394019691 G2 box; other site 394019692 G3 box; other site 394019693 Switch II region; other site 394019694 G4 box; other site 394019695 G5 box; other site 394019696 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 394019697 B3/4 domain; Region: B3_4; pfam03483 394019698 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 394019699 EamA-like transporter family; Region: EamA; pfam00892 394019700 EamA-like transporter family; Region: EamA; pfam00892 394019701 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 394019702 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394019703 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394019704 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 394019705 sequence-specific DNA binding site [nucleotide binding]; other site 394019706 salt bridge; other site 394019707 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 394019708 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 394019709 NAD(P) binding site [chemical binding]; other site 394019710 active site 394019711 Uncharacterized conserved protein [Function unknown]; Region: COG3791 394019712 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 394019713 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 394019714 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 394019715 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 394019716 dimer interface [polypeptide binding]; other site 394019717 PYR/PP interface [polypeptide binding]; other site 394019718 TPP binding site [chemical binding]; other site 394019719 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 394019720 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 394019721 TPP-binding site; other site 394019722 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 394019723 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 394019724 substrate binding site [chemical binding]; other site 394019725 ATP binding site [chemical binding]; other site 394019726 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 394019727 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 394019728 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 394019729 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 394019730 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 394019731 putative active site [active] 394019732 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 394019733 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 394019734 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 394019735 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 394019736 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 394019737 putative active site [active] 394019738 putative dimer interface [polypeptide binding]; other site 394019739 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 394019740 Flavoprotein; Region: Flavoprotein; pfam02441 394019741 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 394019742 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 394019743 nucleoside/Zn binding site; other site 394019744 dimer interface [polypeptide binding]; other site 394019745 catalytic motif [active] 394019746 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 394019747 substrate binding site [chemical binding]; other site 394019748 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 394019749 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 394019750 putative acetyltransferase YhhY; Provisional; Region: PRK10140 394019751 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 394019752 Coenzyme A binding pocket [chemical binding]; other site 394019753 ABC1 family; Region: ABC1; cl17513 394019754 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 394019755 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 394019756 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 394019757 S-adenosylmethionine binding site [chemical binding]; other site 394019758 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 394019759 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 394019760 DNA binding site [nucleotide binding] 394019761 catalytic residue [active] 394019762 H2TH interface [polypeptide binding]; other site 394019763 putative catalytic residues [active] 394019764 turnover-facilitating residue; other site 394019765 intercalation triad [nucleotide binding]; other site 394019766 8OG recognition residue [nucleotide binding]; other site 394019767 putative reading head residues; other site 394019768 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 394019769 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 394019770 enoyl-CoA hydratase; Provisional; Region: PRK05862 394019771 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 394019772 substrate binding site [chemical binding]; other site 394019773 oxyanion hole (OAH) forming residues; other site 394019774 trimer interface [polypeptide binding]; other site 394019775 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239