-- dump date 20140619_045929 -- class Genbank::misc_feature -- table misc_feature_note -- id note 543891000001 The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH). CODH from Rhodospirillum rubrum catalyzes the reversible...; Region: CooC; cd02034 543891000002 P-loop; other site 543891000003 conjugal transfer protein TraM; Provisional; Region: PRK13895 543891000004 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK09522 543891000005 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 543891000006 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 543891000007 ParB-like nuclease domain; Region: ParB; smart00470 543891000008 KorB domain; Region: KorB; pfam08535 543891000009 KorB C-terminal beta-barrel domain; Region: KorB_C; pfam06613 543891000010 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 543891000011 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 543891000012 P-loop; other site 543891000013 Magnesium ion binding site [ion binding]; other site 543891000014 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 543891000015 Magnesium ion binding site [ion binding]; other site 543891000016 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 543891000017 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 543891000018 P-loop; other site 543891000019 Magnesium ion binding site [ion binding]; other site 543891000020 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 543891000021 Magnesium ion binding site [ion binding]; other site 543891000022 conjugal transfer protein TrbA; Provisional; Region: PRK13890 543891000023 Protein of unknown function (DUF2761); Region: DUF2761; pfam10959 543891000024 Antirestriction protein; Region: Antirestrict; pfam03230 543891000025 DNA-damage-inducible protein J [DNA replication, recombination, and repair]; Region: RelB; COG3077 543891000026 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041 543891000027 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 543891000028 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 543891000029 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 543891000030 multiple promoter invertase; Provisional; Region: mpi; PRK13413 543891000031 catalytic residues [active] 543891000032 catalytic nucleophile [active] 543891000033 Presynaptic Site I dimer interface [polypeptide binding]; other site 543891000034 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 543891000035 Synaptic Flat tetramer interface [polypeptide binding]; other site 543891000036 Synaptic Site I dimer interface [polypeptide binding]; other site 543891000037 DNA binding site [nucleotide binding] 543891000038 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 543891000039 DNA-binding interface [nucleotide binding]; DNA binding site 543891000040 Transcriptional regulators [Transcription]; Region: MarR; COG1846 543891000041 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 543891000042 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 543891000043 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 543891000044 Chromate transporter; Region: Chromate_transp; pfam02417 543891000045 Replication initiator protein A; Region: RPA; cl19398 543891000046 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 543891000047 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 543891000048 dimer interface [polypeptide binding]; other site 543891000049 ssDNA binding site [nucleotide binding]; other site 543891000050 tetramer (dimer of dimers) interface [polypeptide binding]; other site 543891000051 conjugal transfer protein TrbA; Provisional; Region: PRK13890 543891000052 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 543891000053 salt bridge; other site 543891000054 non-specific DNA binding site [nucleotide binding]; other site 543891000055 sequence-specific DNA binding site [nucleotide binding]; other site 543891000056 conjugal transfer ATPase TrbB; Provisional; Region: PRK13894 543891000057 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 543891000058 ATP binding site [chemical binding]; other site 543891000059 Walker A motif; other site 543891000060 hexamer interface [polypeptide binding]; other site 543891000061 Walker B motif; other site 543891000062 conjugal transfer protein TrbC; Provisional; Region: PRK13892 543891000063 conjugal transfer protein TrbD; Provisional; Region: PRK13823 543891000064 conjugal transfer protein TrbE; Provisional; Region: PRK13891 543891000065 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 543891000066 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 543891000067 Walker A motif; other site 543891000068 ATP binding site [chemical binding]; other site 543891000069 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 543891000070 conjugal transfer protein TrbF; Provisional; Region: PRK13887 543891000071 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 543891000072 VirB7 interaction site; other site 543891000073 conjugal transfer protein TrbH; Provisional; Region: PRK13883 543891000074 conjugal transfer protein TrbI; Provisional; Region: PRK13881 543891000075 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 543891000076 Conjugal transfer/entry exclusion protein [Intracellular trafficking and secretion]; Region: COG5314 543891000077 conjugal transfer protein TrbJ; Provisional; Region: PRK13879 543891000078 entry exclusion lipoprotein TrbK; Region: TrbK_RP4; TIGR04359 543891000079 P-type conjugative transfer protein TrbL; Region: TrbL_P; TIGR02783 543891000080 conjugal transfer protein TrbM; Provisional; Region: PRK13893 543891000081 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 543891000082 N-acetyl-D-glucosamine binding site [chemical binding]; other site 543891000083 catalytic residue [active] 543891000084 conjugal transfer protein TrbP; Provisional; Region: PRK13882 543891000085 TraX protein; Region: TraX; pfam05857 543891000086 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 543891000087 ligand binding site [chemical binding]; other site 543891000088 tRNA_anti-like; Region: tRNA_anti-like; pfam12869 543891000089 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 543891000090 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 543891000091 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 543891000092 Amidase; Region: Amidase; cl11426 543891000093 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 543891000094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 543891000095 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; cd00491 543891000096 active site 1 [active] 543891000097 dimer interface [polypeptide binding]; other site 543891000098 hexamer interface [polypeptide binding]; other site 543891000099 active site 2 [active] 543891000100 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 543891000101 4-oxalocrotonate decarboxylase; Region: catechol_dmpH; TIGR03218 543891000102 2-oxopent-4-enoate hydratase; Region: catechol_dmpE; TIGR03220 543891000103 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 543891000104 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 543891000105 NAD binding site [chemical binding]; other site 543891000106 catalytic residues [active] 543891000107 mutated transporter gene; nonfunctional 543891000108 The alpha subunit of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol; Region: 2A5CPDO_A; cd07373 543891000109 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 543891000110 The beta subunit of the Class III extradiol dioxygenase, 2-amino-5-chlorophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-amino-5-chlorophenol; Region: 2A5CPDO_B; cd07372 543891000111 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 543891000112 putative active site [active] 543891000113 putative metal binding site [ion binding]; other site 543891000114 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 543891000115 homotrimer interaction site [polypeptide binding]; other site 543891000116 putative active site [active] 543891000117 MarR family; Region: MarR_2; pfam12802 543891000118 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 543891000119 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 543891000120 active site 543891000121 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 543891000122 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 543891000123 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 543891000124 octamer interface [polypeptide binding]; other site 543891000125 active site 543891000126 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 543891000127 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 543891000128 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 543891000129 dimerizarion interface [polypeptide binding]; other site 543891000130 CrgA pocket; other site 543891000131 substrate binding pocket [chemical binding]; other site 543891000132 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 543891000133 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 543891000134 Transcriptional regulators [Transcription]; Region: GntR; COG1802 543891000135 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 543891000136 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 543891000137 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 543891000138 NAD(P) binding site [chemical binding]; other site 543891000139 catalytic residues [active] 543891000140 transposase based on nucleotide sequence but unknown protein based on predicted amino acids 543891000141 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 543891000142 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 543891000143 dimer interface [polypeptide binding]; other site 543891000144 putative tRNA-binding site [nucleotide binding]; other site 543891000145 Nitroreductase-like family 4. 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_4; cd02140 543891000146 dimer interface [polypeptide binding]; other site 543891000147 FMN binding site [chemical binding]; other site 543891000148 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 543891000149 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 543891000150 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 543891000151 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 543891000152 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 543891000153 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 543891000154 putative FMN binding site [chemical binding]; other site 543891000155 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 543891000156 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 543891000157 Putative transposase; Region: Y2_Tnp; pfam04986 543891000158 Organic solute transporter Ostalpha; Region: Solute_trans_a; pfam03619 543891000159 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 543891000160 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 543891000161 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 543891000162 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 543891000163 ArsC family; Region: ArsC; pfam03960 543891000164 catalytic residues [active] 543891000165 arsenical pump membrane protein; Provisional; Region: PRK15445 543891000166 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 543891000167 transmembrane helices; other site 543891000168 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 543891000169 Low molecular weight phosphatase family; Region: LMWPc; cd00115 543891000170 active site 543891000171 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 543891000172 putative DNA binding site [nucleotide binding]; other site 543891000173 putative Zn2+ binding site [ion binding]; other site 543891000174 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 543891000175 Putative transposase; Region: Y2_Tnp; pfam04986 543891000176 Organic solute transporter Ostalpha; Region: Solute_trans_a; pfam03619 543891000177 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 543891000178 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 543891000179 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 543891000180 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 543891000181 Protein of unknown function, DUF462; Region: DUF462; cl01190 543891000182 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 543891000183 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 543891000184 active site 543891000185 metal binding site [ion binding]; metal-binding site 543891000186 interdomain interaction site; other site 543891000187 DNA topoisomerase III; Provisional; Region: PRK07726 543891000188 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 543891000189 active site 543891000190 putative interdomain interaction site [polypeptide binding]; other site 543891000191 putative metal-binding site [ion binding]; other site 543891000192 putative nucleotide binding site [chemical binding]; other site 543891000193 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 543891000194 domain I; other site 543891000195 DNA binding groove [nucleotide binding] 543891000196 phosphate binding site [ion binding]; other site 543891000197 domain II; other site 543891000198 domain III; other site 543891000199 nucleotide binding site [chemical binding]; other site 543891000200 catalytic site [active] 543891000201 domain IV; other site 543891000202 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 543891000203 conjugal transfer peptidase TraF; Provisional; Region: PRK13884 543891000204 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 543891000205 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 543891000206 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 543891000207 Walker A motif; other site 543891000208 ATP binding site [chemical binding]; other site 543891000209 Walker B motif; other site 543891000210 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 543891000211 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 543891000212 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 688245000213 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 688245000214 DnaA N-terminal domain; Region: DnaA_N; pfam11638 688245000215 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 688245000216 Walker A motif; other site 688245000217 ATP binding site [chemical binding]; other site 688245000218 Walker B motif; other site 688245000219 arginine finger; other site 688245000220 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 688245000221 DnaA box-binding interface [nucleotide binding]; other site 688245000222 DNA polymerase III subunit beta; Validated; Region: PRK05643 688245000223 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 688245000224 putative DNA binding surface [nucleotide binding]; other site 688245000225 dimer interface [polypeptide binding]; other site 688245000226 beta-clamp/clamp loader binding surface; other site 688245000227 beta-clamp/translesion DNA polymerase binding surface; other site 688245000228 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 688245000229 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 688245000230 ATP binding site [chemical binding]; other site 688245000231 Mg2+ binding site [ion binding]; other site 688245000232 G-X-G motif; other site 688245000233 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 688245000234 anchoring element; other site 688245000235 dimer interface [polypeptide binding]; other site 688245000236 ATP binding site [chemical binding]; other site 688245000237 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 688245000238 active site 688245000239 putative metal-binding site [ion binding]; other site 688245000240 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 688245000241 Protein-interacting Bro1-like domain of mammalian Alix and related domains; Region: BRO1_Alix_like; cl14649 688245000242 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245000243 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; cl17220 688245000244 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245000245 short chain dehydrogenase; Provisional; Region: PRK07577 688245000246 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245000247 NAD(P) binding site [chemical binding]; other site 688245000248 active site 688245000249 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 688245000250 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 688245000251 DUF35 OB-fold domain; Region: DUF35; pfam01796 688245000252 short chain dehydrogenase; Validated; Region: PRK08264 688245000253 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245000254 NAD(P) binding site [chemical binding]; other site 688245000255 active site 688245000256 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 688245000257 acetyl-CoA acetyltransferase; Provisional; Region: PRK12578 688245000258 active site 688245000259 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245000260 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 688245000261 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 688245000262 acyl-activating enzyme (AAE) consensus motif; other site 688245000263 putative AMP binding site [chemical binding]; other site 688245000264 putative active site [active] 688245000265 putative CoA binding site [chemical binding]; other site 688245000266 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 688245000267 inter-subunit interface; other site 688245000268 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 688245000269 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 688245000270 iron-sulfur cluster [ion binding]; other site 688245000271 [2Fe-2S] cluster binding site [ion binding]; other site 688245000272 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 688245000273 putative alpha subunit interface [polypeptide binding]; other site 688245000274 putative active site [active] 688245000275 putative substrate binding site [chemical binding]; other site 688245000276 Fe binding site [ion binding]; other site 688245000277 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245000278 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 688245000279 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 688245000280 FMN-binding pocket [chemical binding]; other site 688245000281 flavin binding motif; other site 688245000282 phosphate binding motif [ion binding]; other site 688245000283 beta-alpha-beta structure motif; other site 688245000284 NAD binding pocket [chemical binding]; other site 688245000285 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 688245000286 catalytic loop [active] 688245000287 iron binding site [ion binding]; other site 688245000288 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 688245000289 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 688245000290 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 688245000291 PYR/PP interface [polypeptide binding]; other site 688245000292 dimer interface [polypeptide binding]; other site 688245000293 TPP binding site [chemical binding]; other site 688245000294 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 688245000295 TPP-binding site; other site 688245000296 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 688245000297 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 688245000298 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 688245000299 C-terminal domain interface [polypeptide binding]; other site 688245000300 GSH binding site (G-site) [chemical binding]; other site 688245000301 dimer interface [polypeptide binding]; other site 688245000302 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 688245000303 dimer interface [polypeptide binding]; other site 688245000304 substrate binding pocket (H-site) [chemical binding]; other site 688245000305 N-terminal domain interface [polypeptide binding]; other site 688245000306 Putative zinc- or iron-chelating domain; Region: CxxCxxCC; pfam03692 688245000307 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 688245000308 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 688245000309 dimerization interface [polypeptide binding]; other site 688245000310 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 688245000311 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 688245000312 ATP binding site [chemical binding]; other site 688245000313 Mg2+ binding site [ion binding]; other site 688245000314 G-X-G motif; other site 688245000315 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 688245000316 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 688245000317 active site 688245000318 phosphorylation site [posttranslational modification] 688245000319 intermolecular recognition site; other site 688245000320 dimerization interface [polypeptide binding]; other site 688245000321 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 688245000322 DNA binding site [nucleotide binding] 688245000323 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 688245000324 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 688245000325 Outer membrane efflux protein; Region: OEP; pfam02321 688245000326 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 688245000327 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 688245000328 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 688245000329 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245000330 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 688245000331 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; cl17251 688245000332 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 688245000333 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 688245000334 LTXXQ motif family protein; Region: LTXXQ; pfam07813 688245000335 recombination associated protein; Reviewed; Region: rdgC; PRK00321 688245000336 beta-ketothiolase; Provisional; Region: PRK09051 688245000337 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 688245000338 dimer interface [polypeptide binding]; other site 688245000339 active site 688245000340 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 688245000341 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 688245000342 DNA binding residues [nucleotide binding] 688245000343 dimer interface [polypeptide binding]; other site 688245000344 copper binding site [ion binding]; other site 688245000345 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 688245000346 metal-binding site [ion binding] 688245000347 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 688245000348 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 688245000349 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 688245000350 dimerization interface [polypeptide binding]; other site 688245000351 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 688245000352 dimer interface [polypeptide binding]; other site 688245000353 putative CheW interface [polypeptide binding]; other site 688245000354 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 688245000355 FMN binding site [chemical binding]; other site 688245000356 active site 688245000357 substrate binding site [chemical binding]; other site 688245000358 catalytic residue [active] 688245000359 glutathionine S-transferase; Provisional; Region: PRK10542 688245000360 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 688245000361 C-terminal domain interface [polypeptide binding]; other site 688245000362 GSH binding site (G-site) [chemical binding]; other site 688245000363 dimer interface [polypeptide binding]; other site 688245000364 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 688245000365 N-terminal domain interface [polypeptide binding]; other site 688245000366 dimer interface [polypeptide binding]; other site 688245000367 substrate binding pocket (H-site) [chemical binding]; other site 688245000368 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 688245000369 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 688245000370 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 688245000371 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 688245000372 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 688245000373 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 688245000374 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 688245000375 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 688245000376 P-loop; other site 688245000377 Magnesium ion binding site [ion binding]; other site 688245000378 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 688245000379 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 688245000380 Magnesium ion binding site [ion binding]; other site 688245000381 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 688245000382 Serine hydrolase; Region: Ser_hydrolase; pfam06821 688245000383 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 688245000384 ParB-like nuclease domain; Region: ParB; smart00470 688245000385 aldolase II superfamily protein; Provisional; Region: PRK07044 688245000386 intersubunit interface [polypeptide binding]; other site 688245000387 active site 688245000388 Zn2+ binding site [ion binding]; other site 688245000389 glutamate carboxypeptidase; Reviewed; Region: PRK06133 688245000390 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 688245000391 metal binding site [ion binding]; metal-binding site 688245000392 dimer interface [polypeptide binding]; other site 688245000393 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 688245000394 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245000395 putative substrate translocation pore; other site 688245000396 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 688245000397 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 688245000398 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245000399 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245000400 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 688245000401 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 688245000402 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 688245000403 DNA binding residues [nucleotide binding] 688245000404 sulfite oxidase; Provisional; Region: PLN00177 688245000405 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 688245000406 Moco binding site; other site 688245000407 metal coordination site [ion binding]; other site 688245000408 dimerization interface [polypeptide binding]; other site 688245000409 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 688245000410 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 688245000411 Sel1-like repeats; Region: SEL1; smart00671 688245000412 Sel1-like repeats; Region: SEL1; smart00671 688245000413 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 688245000414 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 688245000415 FAD binding domain; Region: FAD_binding_4; pfam01565 688245000416 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 688245000417 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245000418 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 688245000419 putative ligand binding site [chemical binding]; other site 688245000420 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; cd00051 688245000421 EF-hand domain pair; Region: EF-hand_7; pfam13499 688245000422 Ca2+ binding site [ion binding]; other site 688245000423 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 688245000424 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 688245000425 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245000426 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 688245000427 dimerization interface [polypeptide binding]; other site 688245000428 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 688245000429 hydroxyglutarate oxidase; Provisional; Region: PRK11728; cl19156 688245000430 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245000431 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 688245000432 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 688245000433 substrate binding pocket [chemical binding]; other site 688245000434 membrane-bound complex binding site; other site 688245000435 hinge residues; other site 688245000436 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 688245000437 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 688245000438 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 688245000439 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 688245000440 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; cl19102 688245000441 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 688245000442 FAD binding pocket [chemical binding]; other site 688245000443 conserved FAD binding motif [chemical binding]; other site 688245000444 phosphate binding motif [ion binding]; other site 688245000445 beta-alpha-beta structure motif; other site 688245000446 NAD binding pocket [chemical binding]; other site 688245000447 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 688245000448 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 688245000449 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 688245000450 substrate binding site [chemical binding]; other site 688245000451 oxyanion hole (OAH) forming residues; other site 688245000452 trimer interface [polypeptide binding]; other site 688245000453 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; cl18948 688245000454 substrate binding site [chemical binding]; other site 688245000455 trimer interface [polypeptide binding]; other site 688245000456 oxyanion hole (OAH) forming residues; other site 688245000457 threonine dehydratase; Provisional; Region: PRK07334 688245000458 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 688245000459 tetramer interface [polypeptide binding]; other site 688245000460 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245000461 catalytic residue [active] 688245000462 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 688245000463 prohibitin homologues; Region: PHB; smart00244 688245000464 Uncharacterized prokaryotic subgroup of the stomatin-like proteins (slipins) family; belonging to the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_eoslipins_u1; cd08826 688245000465 trimer interface [polypeptide binding]; other site 688245000466 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_GTP; cd00819 688245000467 active site 688245000468 substrate-binding site [chemical binding]; other site 688245000469 metal-binding site [ion binding] 688245000470 GTP binding site [chemical binding]; other site 688245000471 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245000472 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245000473 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 688245000474 substrate binding pocket [chemical binding]; other site 688245000475 dimerization interface [polypeptide binding]; other site 688245000476 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 688245000477 active site 688245000478 metal binding site [ion binding]; metal-binding site 688245000479 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 688245000480 Ligand Binding Site [chemical binding]; other site 688245000481 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 688245000482 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245000483 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 688245000484 dimerization interface [polypeptide binding]; other site 688245000485 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 688245000486 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl19126 688245000487 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245000488 MarR family; Region: MarR_2; cl17246 688245000489 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245000490 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 688245000491 active site 688245000492 catalytic site [active] 688245000493 substrate binding site [chemical binding]; other site 688245000494 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 688245000495 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 688245000496 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 688245000497 glutathione reductase; Validated; Region: PRK06116 688245000498 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245000499 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 688245000500 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 688245000501 cell division topological specificity factor MinE; Provisional; Region: PRK13989 688245000502 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 688245000503 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 688245000504 P-loop; other site 688245000505 ADP binding residues [chemical binding]; other site 688245000506 Switch I; other site 688245000507 Switch II; other site 688245000508 septum formation inhibitor; Reviewed; Region: PRK01973 688245000509 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 688245000510 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 688245000511 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 688245000512 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 688245000513 substrate binding site [chemical binding]; other site 688245000514 oxyanion hole (OAH) forming residues; other site 688245000515 trimer interface [polypeptide binding]; other site 688245000516 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 688245000517 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 688245000518 acyl-activating enzyme (AAE) consensus motif; other site 688245000519 putative AMP binding site [chemical binding]; other site 688245000520 putative active site [active] 688245000521 putative CoA binding site [chemical binding]; other site 688245000522 B12 binding domain; Region: B12-binding; pfam02310 688245000523 B12 binding site [chemical binding]; other site 688245000524 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 688245000525 Radical SAM superfamily; Region: Radical_SAM; pfam04055 688245000526 Sulfate transporter family; Region: Sulfate_transp; cl19250 688245000527 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 688245000528 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 688245000529 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 688245000530 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 688245000531 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 688245000532 CoenzymeA binding site [chemical binding]; other site 688245000533 subunit interaction site [polypeptide binding]; other site 688245000534 PHB binding site; other site 688245000535 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 688245000536 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 688245000537 Walker A/P-loop; other site 688245000538 ATP binding site [chemical binding]; other site 688245000539 Q-loop/lid; other site 688245000540 ABC transporter signature motif; other site 688245000541 Walker B; other site 688245000542 D-loop; other site 688245000543 H-loop/switch region; other site 688245000544 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 688245000545 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 688245000546 Walker A/P-loop; other site 688245000547 ATP binding site [chemical binding]; other site 688245000548 Q-loop/lid; other site 688245000549 ABC transporter signature motif; other site 688245000550 Walker B; other site 688245000551 D-loop; other site 688245000552 H-loop/switch region; other site 688245000553 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 688245000554 TM-ABC transporter signature motif; other site 688245000555 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 688245000556 TM-ABC transporter signature motif; other site 688245000557 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 688245000558 putative ligand binding site [chemical binding]; other site 688245000559 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 688245000560 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 688245000561 acyl-activating enzyme (AAE) consensus motif; other site 688245000562 AMP binding site [chemical binding]; other site 688245000563 active site 688245000564 CoA binding site [chemical binding]; other site 688245000565 aldehyde dehydrogenase; Provisional; Region: PRK11903 688245000566 NAD(P) binding site [chemical binding]; other site 688245000567 catalytic residues [active] 688245000568 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 688245000569 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 688245000570 non-specific DNA binding site [nucleotide binding]; other site 688245000571 salt bridge; other site 688245000572 sequence-specific DNA binding site [nucleotide binding]; other site 688245000573 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 688245000574 ADP binding site [chemical binding]; other site 688245000575 magnesium binding site [ion binding]; other site 688245000576 putative shikimate binding site; other site 688245000577 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 688245000578 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245000579 active site 688245000580 Peptidase family M48; Region: Peptidase_M48; pfam01435 688245000581 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 688245000582 EamA-like transporter family; Region: EamA; pfam00892 688245000583 Cupin domain; Region: Cupin_2; cl17218 688245000584 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 688245000585 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245000586 Acetyl-coenzyme A transporter 1; Region: Acatn; pfam13000 688245000587 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 688245000588 putative substrate translocation pore; other site 688245000589 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 688245000590 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 688245000591 active site 688245000592 phosphorylation site [posttranslational modification] 688245000593 intermolecular recognition site; other site 688245000594 dimerization interface [polypeptide binding]; other site 688245000595 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 688245000596 DNA binding site [nucleotide binding] 688245000597 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 688245000598 dimerization interface [polypeptide binding]; other site 688245000599 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 688245000600 dimer interface [polypeptide binding]; other site 688245000601 phosphorylation site [posttranslational modification] 688245000602 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 688245000603 ATP binding site [chemical binding]; other site 688245000604 Mg2+ binding site [ion binding]; other site 688245000605 G-X-G motif; other site 688245000606 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 688245000607 UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; Region: UDPG_MGDP_dh_N; pfam03721 688245000608 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 688245000609 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 688245000610 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 688245000611 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 688245000612 putative NAD(P) binding site [chemical binding]; other site 688245000613 active site 688245000614 putative substrate binding site [chemical binding]; other site 688245000615 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 688245000616 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl19158 688245000617 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 688245000618 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 688245000619 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 688245000620 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 688245000621 Ligand binding site; other site 688245000622 Putative Catalytic site; other site 688245000623 DXD motif; other site 688245000624 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 688245000625 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 688245000626 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 688245000627 O-Antigen ligase; Region: Wzy_C; pfam04932 688245000628 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 688245000629 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 688245000630 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 688245000631 putative ADP-binding pocket [chemical binding]; other site 688245000632 Zinc-finger domain; Region: zf-CHCC; cl01821 688245000633 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 688245000634 homodimer interface [polypeptide binding]; other site 688245000635 substrate-cofactor binding pocket; other site 688245000636 catalytic residue [active] 688245000637 DNA repair protein RadA; Provisional; Region: PRK11823 688245000638 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 688245000639 Walker A motif/ATP binding site; other site 688245000640 ATP binding site [chemical binding]; other site 688245000641 Walker B motif; other site 688245000642 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 688245000643 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 688245000644 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 688245000645 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 688245000646 NAD(P) binding site [chemical binding]; other site 688245000647 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 688245000648 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 688245000649 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245000650 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245000651 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 688245000652 dimerization interface [polypeptide binding]; other site 688245000653 Predicted membrane protein [Function unknown]; Region: COG4125 688245000654 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 688245000655 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 688245000656 Sodium/glutamate symporter; Region: Glt_symporter; cl19414 688245000657 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 688245000658 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 688245000659 substrate binding pocket [chemical binding]; other site 688245000660 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 688245000661 B12 binding site [chemical binding]; other site 688245000662 cobalt ligand [ion binding]; other site 688245000663 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 688245000664 Transcriptional regulators [Transcription]; Region: GntR; COG1802 688245000665 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245000666 DNA-binding site [nucleotide binding]; DNA binding site 688245000667 FCD domain; Region: FCD; pfam07729 688245000668 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 688245000669 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 688245000670 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 688245000671 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 688245000672 putative active site [active] 688245000673 catalytic site [active] 688245000674 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 688245000675 putative active site [active] 688245000676 catalytic site [active] 688245000677 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 688245000678 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 688245000679 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 688245000680 active site 688245000681 catalytic site [active] 688245000682 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 688245000683 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245000684 catalytic residue [active] 688245000685 Protein of unknown function (DUF2868); Region: DUF2868; pfam11067 688245000686 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 688245000687 G1 box; other site 688245000688 GTP/Mg2+ binding site [chemical binding]; other site 688245000689 G2 box; other site 688245000690 Switch I region; other site 688245000691 G3 box; other site 688245000692 Switch II region; other site 688245000693 G4 box; other site 688245000694 Domain of unknown function (DUF3482); Region: DUF3482; pfam11981 688245000695 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 688245000696 dimerization interface [polypeptide binding]; other site 688245000697 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 688245000698 dimer interface [polypeptide binding]; other site 688245000699 phosphorylation site [posttranslational modification] 688245000700 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 688245000701 ATP binding site [chemical binding]; other site 688245000702 Mg2+ binding site [ion binding]; other site 688245000703 G-X-G motif; other site 688245000704 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 688245000705 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 688245000706 active site 688245000707 phosphorylation site [posttranslational modification] 688245000708 intermolecular recognition site; other site 688245000709 dimerization interface [polypeptide binding]; other site 688245000710 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 688245000711 DNA binding site [nucleotide binding] 688245000712 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 688245000713 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 688245000714 DevC protein; Region: devC; TIGR01185 688245000715 FtsX-like permease family; Region: FtsX; pfam02687 688245000716 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 688245000717 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 688245000718 Walker A/P-loop; other site 688245000719 ATP binding site [chemical binding]; other site 688245000720 Q-loop/lid; other site 688245000721 ABC transporter signature motif; other site 688245000722 Walker B; other site 688245000723 D-loop; other site 688245000724 H-loop/switch region; other site 688245000725 ABC exporter membrane fusion protein, DevB family; Region: heterocyst_DevB; TIGR02971 688245000726 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 688245000727 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245000728 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 688245000729 Esterase/lipase [General function prediction only]; Region: COG1647 688245000730 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 688245000731 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 688245000732 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 688245000733 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; cl18945 688245000734 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 688245000735 catalytic residue [active] 688245000736 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 688245000737 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 688245000738 Ferredoxin [Energy production and conversion]; Region: COG1146 688245000739 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; cl19102 688245000740 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 688245000741 NMT1-like family; Region: NMT1_2; cl17432 688245000742 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 688245000743 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 688245000744 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 688245000745 S-adenosylmethionine binding site [chemical binding]; other site 688245000746 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 688245000747 active site 688245000748 metal binding site [ion binding]; metal-binding site 688245000749 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl19151 688245000750 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 688245000751 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 688245000752 inhibitor-cofactor binding pocket; inhibition site 688245000753 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245000754 catalytic residue [active] 688245000755 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 688245000756 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 688245000757 ATP binding site [chemical binding]; other site 688245000758 putative Mg++ binding site [ion binding]; other site 688245000759 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 688245000760 nucleotide binding region [chemical binding]; other site 688245000761 ATP-binding site [chemical binding]; other site 688245000762 RQC domain; Region: RQC; pfam09382 688245000763 HRDC domain; Region: HRDC; pfam00570 688245000764 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 688245000765 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245000766 DNA-binding site [nucleotide binding]; DNA binding site 688245000767 UTRA domain; Region: UTRA; pfam07702 688245000768 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245000769 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245000770 active site 688245000771 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 688245000772 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245000773 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245000774 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 688245000775 dimerization interface [polypeptide binding]; other site 688245000776 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 688245000777 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 688245000778 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 688245000779 substrate binding pocket [chemical binding]; other site 688245000780 membrane-bound complex binding site; other site 688245000781 hinge residues; other site 688245000782 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 688245000783 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 688245000784 dimer interface [polypeptide binding]; other site 688245000785 conserved gate region; other site 688245000786 putative PBP binding loops; other site 688245000787 ABC-ATPase subunit interface; other site 688245000788 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 688245000789 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 688245000790 Walker A/P-loop; other site 688245000791 ATP binding site [chemical binding]; other site 688245000792 Q-loop/lid; other site 688245000793 ABC transporter signature motif; other site 688245000794 Walker B; other site 688245000795 D-loop; other site 688245000796 H-loop/switch region; other site 688245000797 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 688245000798 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245000799 DNA-binding site [nucleotide binding]; DNA binding site 688245000800 UTRA domain; Region: UTRA; pfam07702 688245000801 Aromatic amino acid lyase; Region: Lyase_aromatic; pfam00221 688245000802 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 688245000803 active sites [active] 688245000804 tetramer interface [polypeptide binding]; other site 688245000805 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 688245000806 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245000807 DNA-binding site [nucleotide binding]; DNA binding site 688245000808 UTRA domain; Region: UTRA; pfam07702 688245000809 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 688245000810 Na binding site [ion binding]; other site 688245000811 urocanate hydratase; Provisional; Region: PRK05414 688245000812 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 688245000813 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 688245000814 metal binding site [ion binding]; metal-binding site 688245000815 putative dimer interface [polypeptide binding]; other site 688245000816 HutD; Region: HutD; pfam05962 688245000817 imidazolonepropionase; Validated; Region: PRK09356 688245000818 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 688245000819 active site 688245000820 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 688245000821 FAD binding domain; Region: FAD_binding_4; pfam01565 688245000822 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 688245000823 histidinol-phosphate aminotransferase; Provisional; Region: PRK05166 688245000824 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 688245000825 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245000826 homodimer interface [polypeptide binding]; other site 688245000827 catalytic residue [active] 688245000828 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 688245000829 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 688245000830 putative substrate translocation pore; other site 688245000831 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 688245000832 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 688245000833 active site 688245000834 N-formylglutamate amidohydrolase; Region: FGase; cl01522 688245000835 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 688245000836 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 688245000837 DNA binding residues [nucleotide binding] 688245000838 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 688245000839 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 688245000840 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245000841 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 688245000842 MMPL family; Region: MMPL; cl14618 688245000843 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 688245000844 Outer membrane efflux protein; Region: OEP; pfam02321 688245000845 Outer membrane efflux protein; Region: OEP; pfam02321 688245000846 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 688245000847 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 688245000848 Topoisomerase II-associated protein PAT1; Region: PAT1; pfam09770 688245000849 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 688245000850 trimer interface [polypeptide binding]; other site 688245000851 eyelet of channel; other site 688245000852 biotin synthase; Region: bioB; TIGR00433 688245000853 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 688245000854 FeS/SAM binding site; other site 688245000855 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 688245000856 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 688245000857 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 688245000858 inhibitor-cofactor binding pocket; inhibition site 688245000859 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245000860 catalytic residue [active] 688245000861 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 688245000862 AAA domain; Region: AAA_26; pfam13500 688245000863 8-amino-7-oxononanoate synthase; Region: bioF; TIGR00858 688245000864 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 688245000865 substrate-cofactor binding pocket; other site 688245000866 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245000867 catalytic residue [active] 688245000868 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 688245000869 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245000870 DNA-binding site [nucleotide binding]; DNA binding site 688245000871 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 688245000872 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245000873 homodimer interface [polypeptide binding]; other site 688245000874 catalytic residue [active] 688245000875 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 688245000876 Sulfate transporter family; Region: Sulfate_transp; cl19250 688245000877 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 688245000878 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 688245000879 catalytic residue [active] 688245000880 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 688245000881 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 688245000882 inhibitor-cofactor binding pocket; inhibition site 688245000883 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245000884 catalytic residue [active] 688245000885 alanine racemase; Reviewed; Region: dadX; PRK03646 688245000886 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 688245000887 active site 688245000888 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 688245000889 substrate binding site [chemical binding]; other site 688245000890 catalytic residues [active] 688245000891 dimer interface [polypeptide binding]; other site 688245000892 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 688245000893 putative substrate translocation pore; other site 688245000894 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 688245000895 EamA-like transporter family; Region: EamA; pfam00892 688245000896 UreI/Amis family, subgroup 1. Putative proton-gated urea channel and putative amide transporters; Region: UreI_AmiS_like_1; cd13747 688245000897 hexamer interface [polypeptide binding]; other site 688245000898 transport channel [chemical binding]; other site 688245000899 constriction site 1 [chemical binding]; other site 688245000900 constriction site 2 [chemical binding]; other site 688245000901 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 688245000902 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 688245000903 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 688245000904 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 688245000905 Trp docking motif [polypeptide binding]; other site 688245000906 cytochrome domain interface [polypeptide binding]; other site 688245000907 active site 688245000908 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 688245000909 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 688245000910 NAD binding site [chemical binding]; other site 688245000911 catalytic residues [active] 688245000912 ProQ/FINO family; Region: ProQ; pfam04352 688245000913 putative RNA binding sites [nucleotide binding]; other site 688245000914 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 688245000915 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 688245000916 Cysteine-rich domain; Region: CCG; pfam02754 688245000917 Cysteine-rich domain; Region: CCG; pfam02754 688245000918 FAD binding domain; Region: FAD_binding_4; pfam01565 688245000919 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 688245000920 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 688245000921 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 688245000922 Nitrogen regulatory protein P-II; Region: P-II; smart00938 688245000923 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 688245000924 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 688245000925 Sulfatase; Region: Sulfatase; pfam00884 688245000926 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245000927 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245000928 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245000929 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; cl17220 688245000930 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 688245000931 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 688245000932 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 688245000933 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; cl18944 688245000934 Walker A motif; other site 688245000935 ATP binding site [chemical binding]; other site 688245000936 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 688245000937 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245000938 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245000939 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 688245000940 dimerization interface [polypeptide binding]; other site 688245000941 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 688245000942 putative substrate translocation pore; other site 688245000943 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245000944 Nitronate monooxygenase; Region: NMO; pfam03060 688245000945 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 688245000946 FMN binding site [chemical binding]; other site 688245000947 substrate binding site [chemical binding]; other site 688245000948 putative catalytic residue [active] 688245000949 feruloyl-CoA synthase; Reviewed; Region: PRK08180 688245000950 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 688245000951 acyl-activating enzyme (AAE) consensus motif; other site 688245000952 putative AMP binding site [chemical binding]; other site 688245000953 putative active site [active] 688245000954 putative CoA binding site [chemical binding]; other site 688245000955 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 688245000956 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 688245000957 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 688245000958 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 688245000959 putative ligand binding site [chemical binding]; other site 688245000960 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 688245000961 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 688245000962 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 688245000963 ligand binding site [chemical binding]; other site 688245000964 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; cl17320 688245000965 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245000966 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245000967 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 688245000968 putative dimerization interface [polypeptide binding]; other site 688245000969 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245000970 Uncharacterized conserved protein [Function unknown]; Region: COG3777 688245000971 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 688245000972 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 688245000973 active site 2 [active] 688245000974 active site 1 [active] 688245000975 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245000976 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245000977 active site 688245000978 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 688245000979 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 688245000980 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245000981 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 688245000982 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245000983 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 688245000984 NAD(P) binding site [chemical binding]; other site 688245000985 active site 688245000986 Lumazine-binding domain; Region: Lumazine_bd; pfam12870 688245000987 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 688245000988 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 688245000989 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 688245000990 Walker A/P-loop; other site 688245000991 ATP binding site [chemical binding]; other site 688245000992 Q-loop/lid; other site 688245000993 ABC transporter signature motif; other site 688245000994 Walker B; other site 688245000995 D-loop; other site 688245000996 H-loop/switch region; other site 688245000997 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 688245000998 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 688245000999 Walker A/P-loop; other site 688245001000 ATP binding site [chemical binding]; other site 688245001001 Q-loop/lid; other site 688245001002 ABC transporter signature motif; other site 688245001003 Walker B; other site 688245001004 D-loop; other site 688245001005 H-loop/switch region; other site 688245001006 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 688245001007 TM-ABC transporter signature motif; other site 688245001008 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 688245001009 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 688245001010 TM-ABC transporter signature motif; other site 688245001011 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 688245001012 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 688245001013 putative ligand binding site [chemical binding]; other site 688245001014 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 688245001015 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 688245001016 FAD binding pocket [chemical binding]; other site 688245001017 FAD binding motif [chemical binding]; other site 688245001018 phosphate binding motif [ion binding]; other site 688245001019 beta-alpha-beta structure motif; other site 688245001020 NAD binding pocket [chemical binding]; other site 688245001021 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 688245001022 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 688245001023 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 688245001024 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 688245001025 galactarate dehydratase; Region: galactar-dH20; TIGR03248 688245001026 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 688245001027 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 688245001028 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245001029 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 688245001030 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 688245001031 active site 688245001032 tetramer interface [polypeptide binding]; other site 688245001033 Transcriptional regulators [Transcription]; Region: FadR; COG2186 688245001034 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245001035 DNA-binding site [nucleotide binding]; DNA binding site 688245001036 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 688245001037 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245001038 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 688245001039 putative active site [active] 688245001040 catalytic residue [active] 688245001041 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245001042 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 688245001043 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 688245001044 putative ligand binding site [chemical binding]; other site 688245001045 NAD binding site [chemical binding]; other site 688245001046 catalytic site [active] 688245001047 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 688245001048 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 688245001049 active site 688245001050 tetramer interface [polypeptide binding]; other site 688245001051 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 688245001052 NAD(P) binding site [chemical binding]; other site 688245001053 catalytic residues [active] 688245001054 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245001055 LysR family transcriptional regulator; Provisional; Region: PRK14997 688245001056 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 688245001057 putative effector binding pocket; other site 688245001058 dimerization interface [polypeptide binding]; other site 688245001059 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 688245001060 Putative cyclase; Region: Cyclase; pfam04199 688245001061 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 688245001062 LrgA family; Region: LrgA; pfam03788 688245001063 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245001064 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245001065 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 688245001066 dimerization interface [polypeptide binding]; other site 688245001067 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 688245001068 active site 688245001069 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 688245001070 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 688245001071 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 688245001072 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 688245001073 ligand binding site [chemical binding]; other site 688245001074 homodimer interface [polypeptide binding]; other site 688245001075 NAD(P) binding site [chemical binding]; other site 688245001076 trimer interface B [polypeptide binding]; other site 688245001077 trimer interface A [polypeptide binding]; other site 688245001078 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 688245001079 NAD(P) transhydrogenase beta subunit; Region: PNTB; cl00566 688245001080 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 688245001081 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 688245001082 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 688245001083 putative DNA binding site [nucleotide binding]; other site 688245001084 putative Zn2+ binding site [ion binding]; other site 688245001085 AsnC family; Region: AsnC_trans_reg; pfam01037 688245001086 Azurin is a redox partner for enzymes such as nitrite reductase or arsenite oxidase; Region: Azurin; cd13922 688245001087 Type 1 (T1) Cu binding site [ion binding]; other site 688245001088 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 688245001089 putative active site [active] 688245001090 putative catalytic site [active] 688245001091 putative DNA binding site [nucleotide binding]; other site 688245001092 putative phosphate binding site [ion binding]; other site 688245001093 metal binding site A [ion binding]; metal-binding site 688245001094 putative AP binding site [nucleotide binding]; other site 688245001095 putative metal binding site B [ion binding]; other site 688245001096 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 688245001097 active site 688245001098 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 688245001099 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 688245001100 HPP family; Region: HPP; pfam04982 688245001101 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 688245001102 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 688245001103 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 688245001104 FMN binding site [chemical binding]; other site 688245001105 dimer interface [polypeptide binding]; other site 688245001106 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 688245001107 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 688245001108 ligand binding site [chemical binding]; other site 688245001109 NAD binding site [chemical binding]; other site 688245001110 tetramer interface [polypeptide binding]; other site 688245001111 catalytic site [active] 688245001112 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 688245001113 L-serine binding site [chemical binding]; other site 688245001114 ACT domain interface; other site 688245001115 Predicted membrane protein [Function unknown]; Region: COG1297 688245001116 Uncharacterized conserved protein [Function unknown]; Region: COG3422 688245001117 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 688245001118 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 688245001119 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245001120 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 688245001121 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 688245001122 GatB domain; Region: GatB_Yqey; smart00845 688245001123 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 688245001124 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 688245001125 rod shape-determining protein MreB; Provisional; Region: PRK13927 688245001126 MreB and similar proteins; Region: MreB_like; cd10225 688245001127 nucleotide binding site [chemical binding]; other site 688245001128 Mg binding site [ion binding]; other site 688245001129 putative protofilament interaction site [polypeptide binding]; other site 688245001130 RodZ interaction site [polypeptide binding]; other site 688245001131 rod shape-determining protein MreC; Provisional; Region: PRK13922 688245001132 rod shape-determining protein MreD; Region: MreD; cl01087 688245001133 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 688245001134 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 688245001135 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 688245001136 hypothetical protein; Provisional; Region: PRK10621 688245001137 choline dehydrogenase; Validated; Region: PRK02106 688245001138 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245001139 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 688245001140 Permease; Region: Permease; pfam02405 688245001141 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 688245001142 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245001143 Walker A/P-loop; other site 688245001144 ATP binding site [chemical binding]; other site 688245001145 Q-loop/lid; other site 688245001146 ABC transporter signature motif; other site 688245001147 Walker B; other site 688245001148 D-loop; other site 688245001149 H-loop/switch region; other site 688245001150 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 688245001151 mce related protein; Region: MCE; pfam02470 688245001152 Protein of unknown function (DUF330); Region: DUF330; cl01135 688245001153 Hemerythrin; Region: Hemerythrin; cd12107 688245001154 Fe binding site [ion binding]; other site 688245001155 MarC family integral membrane protein; Region: MarC; cl00919 688245001156 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 688245001157 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 688245001158 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 688245001159 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 688245001160 oligomer interface [polypeptide binding]; other site 688245001161 putative Cl binding site [ion binding]; other site 688245001162 aspartate ring; other site 688245001163 basic sphincter; other site 688245001164 hydrophobic gate; other site 688245001165 periplasmic entrance; other site 688245001166 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 688245001167 dimer interface [polypeptide binding]; other site 688245001168 allosteric magnesium binding site [ion binding]; other site 688245001169 active site 688245001170 aspartate-rich active site metal binding site; other site 688245001171 Schiff base residues; other site 688245001172 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 688245001173 Predicted integral membrane protein [Function unknown]; Region: COG5652 688245001174 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 688245001175 dimer interface [polypeptide binding]; other site 688245001176 [2Fe-2S] cluster binding site [ion binding]; other site 688245001177 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 688245001178 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245001179 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245001180 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 688245001181 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 688245001182 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 688245001183 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 688245001184 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 688245001185 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 688245001186 streptomycin interaction site [chemical binding]; other site 688245001187 23S rRNA interaction site [nucleotide binding]; other site 688245001188 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 688245001189 16S rRNA interaction site [nucleotide binding]; other site 688245001190 30S ribosomal protein S7; Validated; Region: PRK05302 688245001191 elongation factor G; Reviewed; Region: PRK00007 688245001192 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 688245001193 G1 box; other site 688245001194 putative GEF interaction site [polypeptide binding]; other site 688245001195 GTP/Mg2+ binding site [chemical binding]; other site 688245001196 Switch I region; other site 688245001197 G2 box; other site 688245001198 G3 box; other site 688245001199 Switch II region; other site 688245001200 G4 box; other site 688245001201 G5 box; other site 688245001202 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 688245001203 Elongation Factor G, domain II; Region: EFG_II; pfam14492 688245001204 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 688245001205 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 688245001206 elongation factor Tu; Reviewed; Region: PRK00049 688245001207 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 688245001208 G1 box; other site 688245001209 GEF interaction site [polypeptide binding]; other site 688245001210 GTP/Mg2+ binding site [chemical binding]; other site 688245001211 Switch I region; other site 688245001212 G2 box; other site 688245001213 G3 box; other site 688245001214 Switch II region; other site 688245001215 G4 box; other site 688245001216 G5 box; other site 688245001217 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 688245001218 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 688245001219 Antibiotic Binding Site [chemical binding]; other site 688245001220 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 688245001221 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 688245001222 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 688245001223 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 688245001224 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 688245001225 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 688245001226 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 688245001227 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 688245001228 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 688245001229 putative translocon binding site; other site 688245001230 protein-rRNA interface [nucleotide binding]; other site 688245001231 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 688245001232 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 688245001233 G-X-X-G motif; other site 688245001234 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 688245001235 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 688245001236 23S rRNA interface [nucleotide binding]; other site 688245001237 5S rRNA interface [nucleotide binding]; other site 688245001238 putative antibiotic binding site [chemical binding]; other site 688245001239 L25 interface [polypeptide binding]; other site 688245001240 L27 interface [polypeptide binding]; other site 688245001241 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 688245001242 23S rRNA interface [nucleotide binding]; other site 688245001243 putative translocon interaction site; other site 688245001244 signal recognition particle (SRP54) interaction site; other site 688245001245 L23 interface [polypeptide binding]; other site 688245001246 trigger factor interaction site; other site 688245001247 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 688245001248 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 688245001249 catalytic triad [active] 688245001250 dimer interface [polypeptide binding]; other site 688245001251 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 688245001252 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245001253 Coenzyme A binding pocket [chemical binding]; other site 688245001254 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 688245001255 Cytochrome C' Region: Cytochrom_C_2; pfam01322 688245001256 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 688245001257 catalytic residues [active] 688245001258 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; cl00025 688245001259 active pocket/dimerization site; other site 688245001260 active site 688245001261 phosphorylation site [posttranslational modification] 688245001262 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 688245001263 regulatory protein interface [polypeptide binding]; other site 688245001264 active site 688245001265 regulatory phosphorylation site [posttranslational modification]; other site 688245001266 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 688245001267 PEP-utilizing enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 688245001268 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 688245001269 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 688245001270 Domain of unknown function (DUF1963); Region: DUF1963; pfam09234 688245001271 lipoyl synthase; Provisional; Region: PRK05481 688245001272 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 688245001273 FeS/SAM binding site; other site 688245001274 lipoate-protein ligase B; Provisional; Region: PRK14346 688245001275 Protein of unknown function (DUF493); Region: DUF493; cl01102 688245001276 ATP synthase I chain; Region: ATP_synt_I; pfam03899 688245001277 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 688245001278 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 688245001279 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 688245001280 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471; cl17192 688245001281 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 688245001282 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 688245001283 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 688245001284 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 688245001285 beta subunit interaction interface [polypeptide binding]; other site 688245001286 Walker A motif; other site 688245001287 ATP binding site [chemical binding]; other site 688245001288 Walker B motif; other site 688245001289 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 688245001290 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 688245001291 core domain interface [polypeptide binding]; other site 688245001292 delta subunit interface [polypeptide binding]; other site 688245001293 epsilon subunit interface [polypeptide binding]; other site 688245001294 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 688245001295 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 688245001296 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 688245001297 alpha subunit interaction interface [polypeptide binding]; other site 688245001298 Walker A motif; other site 688245001299 ATP binding site [chemical binding]; other site 688245001300 Walker B motif; other site 688245001301 inhibitor binding site; inhibition site 688245001302 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 688245001303 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 688245001304 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 688245001305 gamma subunit interface [polypeptide binding]; other site 688245001306 epsilon subunit interface [polypeptide binding]; other site 688245001307 LBP interface [polypeptide binding]; other site 688245001308 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 688245001309 DNA-binding site [nucleotide binding]; DNA binding site 688245001310 RNA-binding motif; other site 688245001311 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 688245001312 TLP18.3, Psb32 and MOLO-1 founding proteins of phosphatase; Region: TPM; pfam04536 688245001313 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 688245001314 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 688245001315 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245001316 NAD(P) binding site [chemical binding]; other site 688245001317 active site 688245001318 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245001319 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 688245001320 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 688245001321 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 688245001322 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 688245001323 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 688245001324 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 688245001325 Outer membrane efflux protein; Region: OEP; pfam02321 688245001326 Outer membrane efflux protein; Region: OEP; pfam02321 688245001327 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 688245001328 MMPL family; Region: MMPL; cl14618 688245001329 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 688245001330 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 688245001331 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245001332 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 688245001333 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 688245001334 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 688245001335 elongation factor Tu; Reviewed; Region: PRK00049 688245001336 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 688245001337 G1 box; other site 688245001338 GEF interaction site [polypeptide binding]; other site 688245001339 GTP/Mg2+ binding site [chemical binding]; other site 688245001340 Switch I region; other site 688245001341 G2 box; other site 688245001342 G3 box; other site 688245001343 Switch II region; other site 688245001344 G4 box; other site 688245001345 G5 box; other site 688245001346 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 688245001347 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 688245001348 Antibiotic Binding Site [chemical binding]; other site 688245001349 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 688245001350 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 688245001351 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 688245001352 putative homodimer interface [polypeptide binding]; other site 688245001353 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 688245001354 heterodimer interface [polypeptide binding]; other site 688245001355 homodimer interface [polypeptide binding]; other site 688245001356 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 688245001357 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 688245001358 23S rRNA interface [nucleotide binding]; other site 688245001359 L7/L12 interface [polypeptide binding]; other site 688245001360 putative thiostrepton binding site; other site 688245001361 L25 interface [polypeptide binding]; other site 688245001362 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 688245001363 mRNA/rRNA interface [nucleotide binding]; other site 688245001364 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 688245001365 23S rRNA interface [nucleotide binding]; other site 688245001366 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 688245001367 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 688245001368 peripheral dimer interface [polypeptide binding]; other site 688245001369 core dimer interface [polypeptide binding]; other site 688245001370 L10 interface [polypeptide binding]; other site 688245001371 L11 interface [polypeptide binding]; other site 688245001372 putative EF-Tu interaction site [polypeptide binding]; other site 688245001373 putative EF-G interaction site [polypeptide binding]; other site 688245001374 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 688245001375 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 688245001376 RPB12 interaction site [polypeptide binding]; other site 688245001377 RPB1 interaction site [polypeptide binding]; other site 688245001378 RPB10 interaction site [polypeptide binding]; other site 688245001379 RPB11 interaction site [polypeptide binding]; other site 688245001380 RPB3 interaction site [polypeptide binding]; other site 688245001381 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 688245001382 Largest subunit (beta') of bacterial DNA-dependent RNA polymerase (RNAP), N-terminal domain; Region: RNAP_beta'_N; cd01609 688245001383 beta and beta' interface [polypeptide binding]; other site 688245001384 beta' and sigma factor interface [polypeptide binding]; other site 688245001385 Zn-binding [ion binding]; other site 688245001386 active site region [active] 688245001387 catalytic site [active] 688245001388 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 688245001389 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 688245001390 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 688245001391 G-loop; other site 688245001392 DNA binding site [nucleotide binding] 688245001393 16S rRNA methyltransferase B; Provisional; Region: PRK10901 688245001394 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 688245001395 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 688245001396 S-adenosylmethionine binding site [chemical binding]; other site 688245001397 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 688245001398 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 688245001399 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 688245001400 dimerization interface [polypeptide binding]; other site 688245001401 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 688245001402 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 688245001403 putative active site [active] 688245001404 heme pocket [chemical binding]; other site 688245001405 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 688245001406 dimer interface [polypeptide binding]; other site 688245001407 phosphorylation site [posttranslational modification] 688245001408 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 688245001409 ATP binding site [chemical binding]; other site 688245001410 Mg2+ binding site [ion binding]; other site 688245001411 G-X-G motif; other site 688245001412 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 688245001413 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 688245001414 active site 688245001415 phosphorylation site [posttranslational modification] 688245001416 intermolecular recognition site; other site 688245001417 dimerization interface [polypeptide binding]; other site 688245001418 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 688245001419 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 688245001420 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 688245001421 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 688245001422 Part of AAA domain; Region: AAA_19; pfam13245 688245001423 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 688245001424 AAA domain; Region: AAA_30; pfam13604 688245001425 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 688245001426 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_18; cd08357 688245001427 putative metal binding site [ion binding]; other site 688245001428 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 688245001429 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 688245001430 C-terminal domain interface [polypeptide binding]; other site 688245001431 GSH binding site (G-site) [chemical binding]; other site 688245001432 dimer interface [polypeptide binding]; other site 688245001433 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 688245001434 N-terminal domain interface [polypeptide binding]; other site 688245001435 dimer interface [polypeptide binding]; other site 688245001436 substrate binding pocket (H-site) [chemical binding]; other site 688245001437 Protein of unknown function (DUF461); Region: DUF461; pfam04314 688245001438 FIST N domain; Region: FIST; pfam08495 688245001439 FIST C domain; Region: FIST_C; pfam10442 688245001440 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 688245001441 Uncharacterized conserved protein [Function unknown]; Region: COG2128 688245001442 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 688245001443 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 688245001444 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 688245001445 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245001446 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245001447 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 688245001448 non-specific DNA binding site [nucleotide binding]; other site 688245001449 salt bridge; other site 688245001450 sequence-specific DNA binding site [nucleotide binding]; other site 688245001451 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245001452 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 688245001453 putative substrate translocation pore; other site 688245001454 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 688245001455 putative acyl-acceptor binding pocket; other site 688245001456 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 688245001457 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 688245001458 TolA protein; Region: tolA_full; TIGR02794 688245001459 Double zinc ribbon; Region: DZR; pfam12773 688245001460 MASE1; Region: MASE1; cl17823 688245001461 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245001462 metal binding site [ion binding]; metal-binding site 688245001463 active site 688245001464 I-site; other site 688245001465 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 688245001466 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 688245001467 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 688245001468 Ligand Binding Site [chemical binding]; other site 688245001469 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245001470 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 688245001471 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 688245001472 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245001473 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 688245001474 active site 688245001475 FMN binding site [chemical binding]; other site 688245001476 substrate binding site [chemical binding]; other site 688245001477 homotetramer interface [polypeptide binding]; other site 688245001478 catalytic residue [active] 688245001479 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 688245001480 classical (c) SDRs; Region: SDR_c; cd05233 688245001481 NAD(P) binding site [chemical binding]; other site 688245001482 active site 688245001483 enoyl-CoA hydratase; Provisional; Region: PRK08258 688245001484 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 688245001485 substrate binding site [chemical binding]; other site 688245001486 oxyanion hole (OAH) forming residues; other site 688245001487 trimer interface [polypeptide binding]; other site 688245001488 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245001489 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245001490 active site 688245001491 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 688245001492 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 688245001493 acyl-activating enzyme (AAE) consensus motif; other site 688245001494 AMP binding site [chemical binding]; other site 688245001495 active site 688245001496 CoA binding site [chemical binding]; other site 688245001497 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 688245001498 active site 688245001499 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 688245001500 homotrimer interaction site [polypeptide binding]; other site 688245001501 putative active site [active] 688245001502 SGNH_hydrolase, or GDSL_hydrolase, is 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 hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 688245001503 active site 688245001504 catalytic triad [active] 688245001505 oxyanion hole [active] 688245001506 Phospholipase A1; Region: PLA1; pfam02253 688245001507 substrate binding site [chemical binding]; other site 688245001508 dimerization interface [polypeptide binding]; other site 688245001509 active site 688245001510 calcium binding site [ion binding]; other site 688245001511 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 688245001512 Part of AAA domain; Region: AAA_19; pfam13245 688245001513 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; cl19402 688245001514 8-oxoguanine DNA-glycosylase (ogg); Region: ogg; TIGR00588 688245001515 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 688245001516 G1 box; other site 688245001517 GTP/Mg2+ binding site [chemical binding]; other site 688245001518 G2 box; other site 688245001519 Switch I region; other site 688245001520 G3 box; other site 688245001521 Switch II region; other site 688245001522 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 688245001523 Predicted permeases [General function prediction only]; Region: COG0679 688245001524 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cd00411 688245001525 active site 688245001526 homodimer interface [polypeptide binding]; other site 688245001527 primosome assembly protein PriA; Validated; Region: PRK05580 688245001528 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 688245001529 ATP binding site [chemical binding]; other site 688245001530 putative Mg++ binding site [ion binding]; other site 688245001531 helicase superfamily c-terminal domain; Region: HELICc; smart00490 688245001532 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 688245001533 substrate binding site [chemical binding]; other site 688245001534 active site 688245001535 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 688245001536 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 688245001537 active site 688245001538 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 688245001539 Sulfite exporter TauE/SafE; Region: TauE; cl19196 688245001540 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 688245001541 DsbD alpha interface [polypeptide binding]; other site 688245001542 catalytic residues [active] 688245001543 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 688245001544 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 688245001545 Creatinine amidohydrolase; Region: Creatininase; pfam02633 688245001546 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245001547 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 688245001548 catalytic core [active] 688245001549 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 688245001550 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 688245001551 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 688245001552 dimer interface [polypeptide binding]; other site 688245001553 conserved gate region; other site 688245001554 putative PBP binding loops; other site 688245001555 ABC-ATPase subunit interface; other site 688245001556 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 688245001557 dimer interface [polypeptide binding]; other site 688245001558 conserved gate region; other site 688245001559 putative PBP binding loops; other site 688245001560 ABC-ATPase subunit interface; other site 688245001561 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 688245001562 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245001563 Walker A/P-loop; other site 688245001564 ATP binding site [chemical binding]; other site 688245001565 Q-loop/lid; other site 688245001566 ABC transporter signature motif; other site 688245001567 Walker B; other site 688245001568 D-loop; other site 688245001569 H-loop/switch region; other site 688245001570 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 688245001571 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 688245001572 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 688245001573 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 688245001574 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245001575 homodimer interface [polypeptide binding]; other site 688245001576 catalytic residue [active] 688245001577 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 688245001578 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245001579 DNA-binding site [nucleotide binding]; DNA binding site 688245001580 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 688245001581 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245001582 homodimer interface [polypeptide binding]; other site 688245001583 catalytic residue [active] 688245001584 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 688245001585 putative active site [active] 688245001586 YdjC motif; other site 688245001587 Mg binding site [ion binding]; other site 688245001588 putative homodimer interface [polypeptide binding]; other site 688245001589 GtrA-like protein; Region: GtrA; pfam04138 688245001590 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 688245001591 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 688245001592 Ligand binding site; other site 688245001593 Putative Catalytic site; other site 688245001594 DXD motif; other site 688245001595 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 688245001596 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 688245001597 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 688245001598 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 688245001599 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 688245001600 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl19173 688245001601 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 688245001602 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 688245001603 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 688245001604 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 688245001605 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 688245001606 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 688245001607 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 688245001608 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 688245001609 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 688245001610 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 688245001611 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 688245001612 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 688245001613 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 688245001614 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 688245001615 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 688245001616 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 688245001617 Flagellar L-ring protein; Region: FlgH; pfam02107 688245001618 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 688245001619 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 688245001620 Rod binding protein; Region: Rod-binding; cl01626 688245001621 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 688245001622 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 688245001623 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 688245001624 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 688245001625 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 688245001626 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 688245001627 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 688245001628 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 688245001629 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 688245001630 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 688245001631 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 688245001632 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 688245001633 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 688245001634 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 688245001635 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 688245001636 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 688245001637 DNA binding residues [nucleotide binding] 688245001638 Flagellar protein FliT; Region: FliT; pfam05400 688245001639 flagellar protein FliS; Validated; Region: fliS; PRK05685 688245001640 flagellar capping protein; Reviewed; Region: fliD; PRK08032 688245001641 Flagellar hook-associated protein 2 N-terminus; Region: FliD_N; pfam02465 688245001642 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 688245001643 flagellin; Reviewed; Region: PRK08869 688245001644 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 688245001645 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 688245001646 flagellin; Reviewed; Region: PRK08869 688245001647 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 688245001648 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 688245001649 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 688245001650 flagellar motor protein MotA; Validated; Region: PRK09110 688245001651 flagellar motor protein MotB; Validated; Region: motB; PRK09041 688245001652 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 688245001653 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 688245001654 ligand binding site [chemical binding]; other site 688245001655 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 688245001656 active site 688245001657 phosphorylation site [posttranslational modification] 688245001658 intermolecular recognition site; other site 688245001659 dimerization interface [polypeptide binding]; other site 688245001660 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 688245001661 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 688245001662 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 688245001663 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 688245001664 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 688245001665 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 688245001666 FliG N-terminal domain; Region: FliG_N; pfam14842 688245001667 FliG middle domain; Region: FliG_M; pfam14841 688245001668 FliG C-terminal domain; Region: FliG_C; pfam01706 688245001669 Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliH; COG1317 688245001670 Flagellar assembly protein FliH; Region: FliH; pfam02108 688245001671 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 688245001672 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 688245001673 Walker A motif; other site 688245001674 ATP binding site [chemical binding]; other site 688245001675 Walker B motif; other site 688245001676 Flagellar FliJ protein; Region: FliJ; pfam02050 688245001677 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 688245001678 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 688245001679 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 688245001680 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 688245001681 flagellar motor switch protein; Validated; Region: fliN; PRK05698 688245001682 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 688245001683 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 688245001684 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 688245001685 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 688245001686 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 688245001687 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 688245001688 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 688245001689 active site 688245001690 phosphorylation site [posttranslational modification] 688245001691 intermolecular recognition site; other site 688245001692 dimerization interface [polypeptide binding]; other site 688245001693 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 688245001694 DNA binding residues [nucleotide binding] 688245001695 dimerization interface [polypeptide binding]; other site 688245001696 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 688245001697 active site 688245001698 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 688245001699 phosphorylation site [posttranslational modification] 688245001700 intermolecular recognition site; other site 688245001701 dimerization interface [polypeptide binding]; other site 688245001702 Histidine kinase; Region: HisKA_3; pfam07730 688245001703 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 688245001704 ATP binding site [chemical binding]; other site 688245001705 Mg2+ binding site [ion binding]; other site 688245001706 G-X-G motif; other site 688245001707 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 688245001708 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 688245001709 active site 688245001710 phosphorylation site [posttranslational modification] 688245001711 intermolecular recognition site; other site 688245001712 dimerization interface [polypeptide binding]; other site 688245001713 chemotaxis protein CheA; Provisional; Region: PRK10547 688245001714 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 688245001715 putative binding surface; other site 688245001716 active site 688245001717 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 688245001718 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 688245001719 ATP binding site [chemical binding]; other site 688245001720 Mg2+ binding site [ion binding]; other site 688245001721 G-X-G motif; other site 688245001722 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 688245001723 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 688245001724 putative CheA interaction surface; other site 688245001725 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 688245001726 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 688245001727 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 688245001728 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13487 688245001729 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 688245001730 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 688245001731 active site 688245001732 phosphorylation site [posttranslational modification] 688245001733 intermolecular recognition site; other site 688245001734 Enolase C-terminal domain-like; Region: MR_MLE_C; pfam13378 688245001735 dimerization interface [polypeptide binding]; other site 688245001736 CheB methylesterase; Region: CheB_methylest; pfam01339 688245001737 ABC transporter ATPase component; Reviewed; Region: PRK11147 688245001738 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 688245001739 ABC transporter; Region: ABC_tran_2; pfam12848 688245001740 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 688245001741 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 688245001742 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 688245001743 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 688245001744 DNA binding residues [nucleotide binding] 688245001745 putative dimer interface [polypeptide binding]; other site 688245001746 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 688245001747 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 688245001748 CoenzymeA binding site [chemical binding]; other site 688245001749 subunit interaction site [polypeptide binding]; other site 688245001750 PHB binding site; other site 688245001751 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 688245001752 isovaleryl-CoA dehydrogenase; Region: PLN02519 688245001753 substrate binding site [chemical binding]; other site 688245001754 FAD binding site [chemical binding]; other site 688245001755 catalytic base [active] 688245001756 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_cladeA; cd00883 688245001757 active site clefts [active] 688245001758 zinc binding site [ion binding]; other site 688245001759 dimer interface [polypeptide binding]; other site 688245001760 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 688245001761 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 688245001762 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 688245001763 dimer interface [polypeptide binding]; other site 688245001764 active site 688245001765 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 688245001766 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 688245001767 short chain dehydrogenase; Provisional; Region: PRK06953 688245001768 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 688245001769 NAD(P) binding site [chemical binding]; other site 688245001770 active site 688245001771 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245001772 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245001773 active site 688245001774 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245001775 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 688245001776 Predicted membrane protein [Function unknown]; Region: COG2323 688245001777 SEC-C motif; Region: SEC-C; cl19389 688245001778 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 688245001779 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 688245001780 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 688245001781 dimer interface [polypeptide binding]; other site 688245001782 phosphorylation site [posttranslational modification] 688245001783 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 688245001784 ATP binding site [chemical binding]; other site 688245001785 Mg2+ binding site [ion binding]; other site 688245001786 G-X-G motif; other site 688245001787 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 688245001788 active site 688245001789 phosphorylation site [posttranslational modification] 688245001790 intermolecular recognition site; other site 688245001791 dimerization interface [polypeptide binding]; other site 688245001792 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 688245001793 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 688245001794 active site 688245001795 phosphorylation site [posttranslational modification] 688245001796 intermolecular recognition site; other site 688245001797 dimerization interface [polypeptide binding]; other site 688245001798 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 688245001799 DNA binding residues [nucleotide binding] 688245001800 dimerization interface [polypeptide binding]; other site 688245001801 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 688245001802 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 688245001803 active site 688245001804 motif I; other site 688245001805 motif II; other site 688245001806 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 688245001807 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 688245001808 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 688245001809 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245001810 AMP-binding domain protein; Validated; Region: PRK08315 688245001811 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 688245001812 acyl-activating enzyme (AAE) consensus motif; other site 688245001813 putative AMP binding site [chemical binding]; other site 688245001814 putative active site [active] 688245001815 putative CoA binding site [chemical binding]; other site 688245001816 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 688245001817 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 688245001818 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 688245001819 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 688245001820 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 688245001821 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245001822 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 688245001823 enoyl-CoA hydratase; Provisional; Region: PRK05995 688245001824 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 688245001825 substrate binding site [chemical binding]; other site 688245001826 oxyanion hole (OAH) forming residues; other site 688245001827 trimer interface [polypeptide binding]; other site 688245001828 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 688245001829 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 688245001830 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 688245001831 ATP-grasp domain; Region: ATP-grasp_4; cl17255 688245001832 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 688245001833 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 688245001834 carboxyltransferase (CT) interaction site; other site 688245001835 biotinylation site [posttranslational modification]; other site 688245001836 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 688245001837 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 688245001838 putative ligand binding site [chemical binding]; other site 688245001839 NAD binding site [chemical binding]; other site 688245001840 dimerization interface [polypeptide binding]; other site 688245001841 catalytic site [active] 688245001842 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 688245001843 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 688245001844 active site 688245001845 catalytic residues [active] 688245001846 metal binding site [ion binding]; metal-binding site 688245001847 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 688245001848 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 688245001849 putative deacylase active site [active] 688245001850 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 688245001851 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 688245001852 Phosphoesterase family; Region: Phosphoesterase; pfam04185 688245001853 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 688245001854 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 688245001855 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 688245001856 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 688245001857 Na binding site [ion binding]; other site 688245001858 Protein of unknown function, DUF485; Region: DUF485; pfam04341 688245001859 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 688245001860 metabolite-proton symporter; Region: 2A0106; TIGR00883 688245001861 putative substrate translocation pore; other site 688245001862 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 688245001863 trimer interface [polypeptide binding]; other site 688245001864 eyelet of channel; other site 688245001865 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 688245001866 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245001867 Walker A/P-loop; other site 688245001868 ATP binding site [chemical binding]; other site 688245001869 Q-loop/lid; other site 688245001870 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245001871 ABC transporter signature motif; other site 688245001872 Walker B; other site 688245001873 D-loop; other site 688245001874 H-loop/switch region; other site 688245001875 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245001876 Walker A/P-loop; other site 688245001877 ATP binding site [chemical binding]; other site 688245001878 Q-loop/lid; other site 688245001879 ABC transporter signature motif; other site 688245001880 Walker B; other site 688245001881 D-loop; other site 688245001882 H-loop/switch region; other site 688245001883 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 688245001884 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245001885 Walker A/P-loop; other site 688245001886 ATP binding site [chemical binding]; other site 688245001887 Q-loop/lid; other site 688245001888 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 688245001889 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245001890 Walker A/P-loop; other site 688245001891 ATP binding site [chemical binding]; other site 688245001892 Q-loop/lid; other site 688245001893 ABC transporter signature motif; other site 688245001894 Walker B; other site 688245001895 D-loop; other site 688245001896 H-loop/switch region; other site 688245001897 DctM-like transporters; Region: DctM; pfam06808 688245001898 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 688245001899 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 688245001900 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 688245001901 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 688245001902 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 688245001903 motif II; other site 688245001904 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 688245001905 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 688245001906 G1 box; other site 688245001907 putative GEF interaction site [polypeptide binding]; other site 688245001908 GTP/Mg2+ binding site [chemical binding]; other site 688245001909 Switch I region; other site 688245001910 G2 box; other site 688245001911 G3 box; other site 688245001912 Switch II region; other site 688245001913 G4 box; other site 688245001914 G5 box; other site 688245001915 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 688245001916 Elongation Factor G, domain II; Region: EFG_II; pfam14492 688245001917 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 688245001918 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245001919 putative substrate translocation pore; other site 688245001920 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 688245001921 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 688245001922 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 688245001923 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 688245001924 Soluble P-type ATPase [General function prediction only]; Region: COG4087 688245001925 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 688245001926 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 688245001927 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 688245001928 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 688245001929 Ligand Binding Site [chemical binding]; other site 688245001930 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 688245001931 GAF domain; Region: GAF_3; pfam13492 688245001932 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 688245001933 dimer interface [polypeptide binding]; other site 688245001934 phosphorylation site [posttranslational modification] 688245001935 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 688245001936 ATP binding site [chemical binding]; other site 688245001937 Mg2+ binding site [ion binding]; other site 688245001938 G-X-G motif; other site 688245001939 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 688245001940 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 688245001941 active site 688245001942 phosphorylation site [posttranslational modification] 688245001943 intermolecular recognition site; other site 688245001944 dimerization interface [polypeptide binding]; other site 688245001945 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 688245001946 DNA binding site [nucleotide binding] 688245001947 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 688245001948 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 688245001949 homotetramer interface [polypeptide binding]; other site 688245001950 ligand binding site [chemical binding]; other site 688245001951 catalytic site [active] 688245001952 NAD binding site [chemical binding]; other site 688245001953 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 688245001954 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 688245001955 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 688245001956 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 688245001957 FAD binding site [chemical binding]; other site 688245001958 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 688245001959 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 688245001960 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 688245001961 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 688245001962 23S rRNA interface [nucleotide binding]; other site 688245001963 L3 interface [polypeptide binding]; other site 688245001964 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 688245001965 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 688245001966 putative transporter; Provisional; Region: PRK10504 688245001967 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 688245001968 putative substrate translocation pore; other site 688245001969 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 688245001970 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2; pfam00111 688245001971 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 688245001972 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 688245001973 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 688245001974 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 688245001975 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 688245001976 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 688245001977 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 688245001978 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 688245001979 NMT1-like family; Region: NMT1_2; cl17432 688245001980 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 688245001981 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 688245001982 dimer interface [polypeptide binding]; other site 688245001983 conserved gate region; other site 688245001984 putative PBP binding loops; other site 688245001985 ABC-ATPase subunit interface; other site 688245001986 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 688245001987 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245001988 Walker A/P-loop; other site 688245001989 ATP binding site [chemical binding]; other site 688245001990 Q-loop/lid; other site 688245001991 ABC transporter signature motif; other site 688245001992 Walker B; other site 688245001993 D-loop; other site 688245001994 H-loop/switch region; other site 688245001995 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 688245001996 active site 688245001997 non-prolyl cis peptide bond; other site 688245001998 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 688245001999 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 688245002000 Peptidase family M23; Region: Peptidase_M23; pfam01551 688245002001 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 688245002002 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 688245002003 active site 688245002004 HIGH motif; other site 688245002005 dimer interface [polypeptide binding]; other site 688245002006 KMSKS motif; other site 688245002007 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 688245002008 RNA binding surface [nucleotide binding]; other site 688245002009 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245002010 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 688245002011 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 688245002012 dimerization interface [polypeptide binding]; other site 688245002013 substrate binding pocket [chemical binding]; other site 688245002014 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: glmU; TIGR01173 688245002015 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 688245002016 Substrate binding site; other site 688245002017 Mg++ binding site; other site 688245002018 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 688245002019 active site 688245002020 substrate binding site [chemical binding]; other site 688245002021 CoA binding site [chemical binding]; other site 688245002022 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 688245002023 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 688245002024 dimer interface [polypeptide binding]; other site 688245002025 phosphorylation site [posttranslational modification] 688245002026 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 688245002027 ATP binding site [chemical binding]; other site 688245002028 Mg2+ binding site [ion binding]; other site 688245002029 G-X-G motif; other site 688245002030 MASE2 domain; Region: MASE2; pfam05230 688245002031 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245002032 metal binding site [ion binding]; metal-binding site 688245002033 active site 688245002034 I-site; other site 688245002035 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 688245002036 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; cl17220 688245002037 putative DNA binding site [nucleotide binding]; other site 688245002038 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 688245002039 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 688245002040 glutaminase active site [active] 688245002041 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 688245002042 dimer interface [polypeptide binding]; other site 688245002043 active site 688245002044 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 688245002045 dimer interface [polypeptide binding]; other site 688245002046 active site 688245002047 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 688245002048 DctM-like transporters; Region: DctM; pfam06808 688245002049 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 688245002050 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 688245002051 Transcriptional regulators [Transcription]; Region: GntR; COG1802 688245002052 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245002053 DNA-binding site [nucleotide binding]; DNA binding site 688245002054 FCD domain; Region: FCD; pfam07729 688245002055 Protein of unknown function (DUF969); Region: DUF969; pfam06149 688245002056 Protein of unknown function (DUF979); Region: DUF979; pfam06166 688245002057 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 688245002058 putative substrate binding pocket [chemical binding]; other site 688245002059 AC domain interface; other site 688245002060 catalytic triad [active] 688245002061 AB domain interface; other site 688245002062 interchain disulfide; other site 688245002063 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 688245002064 putative active site [active] 688245002065 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 688245002066 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 688245002067 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 688245002068 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 688245002069 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 688245002070 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 688245002071 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 688245002072 carboxyltransferase (CT) interaction site; other site 688245002073 biotinylation site [posttranslational modification]; other site 688245002074 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 688245002075 metal-binding site [ion binding] 688245002076 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 688245002077 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 688245002078 metal-binding site [ion binding] 688245002079 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 688245002080 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 688245002081 motif II; other site 688245002082 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 688245002083 Lumazine binding domain; Region: Lum_binding; pfam00677 688245002084 Lumazine binding domain; Region: Lum_binding; pfam00677 688245002085 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 688245002086 Protein of unknown function (DUF342); Region: DUF342; cl19219 688245002087 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 688245002088 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 688245002089 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245002090 homodimer interface [polypeptide binding]; other site 688245002091 catalytic residue [active] 688245002092 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 688245002093 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245002094 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 688245002095 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 688245002096 dimerization interface [polypeptide binding]; other site 688245002097 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 688245002098 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 688245002099 substrate binding pocket [chemical binding]; other site 688245002100 membrane-bound complex binding site; other site 688245002101 hinge residues; other site 688245002102 Inner membrane complex protein; Region: IMCp; pfam12314 688245002103 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 688245002104 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 688245002105 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 688245002106 nucleotide binding site [chemical binding]; other site 688245002107 putative NEF/HSP70 interaction site [polypeptide binding]; other site 688245002108 SBD interface [polypeptide binding]; other site 688245002109 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 688245002110 eyelet of channel; other site 688245002111 trimer interface [polypeptide binding]; other site 688245002112 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 688245002113 nucleotide binding site [chemical binding]; other site 688245002114 putative NEF/HSP70 interaction site [polypeptide binding]; other site 688245002115 SBD interface [polypeptide binding]; other site 688245002116 DNA-K related protein; Region: DUF3731; pfam12531 688245002117 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245002118 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 688245002119 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 688245002120 Nitrate and nitrite sensing; Region: NIT; pfam08376 688245002121 ANTAR domain; Region: ANTAR; pfam03861 688245002122 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 688245002123 NMT1-like family; Region: NMT1_2; pfam13379 688245002124 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 688245002125 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 688245002126 dimer interface [polypeptide binding]; other site 688245002127 conserved gate region; other site 688245002128 putative PBP binding loops; other site 688245002129 ABC-ATPase subunit interface; other site 688245002130 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 688245002131 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 688245002132 Walker A/P-loop; other site 688245002133 ATP binding site [chemical binding]; other site 688245002134 Q-loop/lid; other site 688245002135 ABC transporter signature motif; other site 688245002136 Walker B; other site 688245002137 D-loop; other site 688245002138 H-loop/switch region; other site 688245002139 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 688245002140 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245002141 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 688245002142 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 688245002143 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 688245002144 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 688245002145 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 688245002146 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 688245002147 [2Fe-2S] cluster binding site [ion binding]; other site 688245002148 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 688245002149 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 688245002150 [4Fe-4S] binding site [ion binding]; other site 688245002151 molybdopterin cofactor binding site; other site 688245002152 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 688245002153 molybdopterin cofactor binding site; other site 688245002154 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 688245002155 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 688245002156 active site 688245002157 SAM binding site [chemical binding]; other site 688245002158 homodimer interface [polypeptide binding]; other site 688245002159 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 688245002160 tetramerization interface [polypeptide binding]; other site 688245002161 NAD(P) binding site [chemical binding]; other site 688245002162 catalytic residues [active] 688245002163 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 688245002164 N-terminal plug; other site 688245002165 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 688245002166 ligand-binding site [chemical binding]; other site 688245002167 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 688245002168 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 688245002169 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: HemV-2; cd01147 688245002170 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 688245002171 putative metal binding site [ion binding]; other site 688245002172 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 688245002173 ABC-ATPase subunit interface; other site 688245002174 dimer interface [polypeptide binding]; other site 688245002175 putative PBP binding regions; other site 688245002176 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 688245002177 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 688245002178 Walker A/P-loop; other site 688245002179 ATP binding site [chemical binding]; other site 688245002180 Q-loop/lid; other site 688245002181 ABC transporter signature motif; other site 688245002182 Walker B; other site 688245002183 D-loop; other site 688245002184 H-loop/switch region; other site 688245002185 Fusaric acid resistance protein family; Region: FUSC; pfam04632 688245002186 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 688245002187 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; cl17220 688245002188 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245002189 Predicted membrane protein [Function unknown]; Region: COG2855 688245002190 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 688245002191 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245002192 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 688245002193 putative dimerization interface [polypeptide binding]; other site 688245002194 CreA protein; Region: CreA; pfam05981 688245002195 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 688245002196 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245002197 putative substrate translocation pore; other site 688245002198 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 688245002199 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 688245002200 N-terminal plug; other site 688245002201 ligand-binding site [chemical binding]; other site 688245002202 cyanophycin synthetase; Provisional; Region: PRK14016 688245002203 ATP-grasp domain; Region: ATP-grasp_4; cl17255 688245002204 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 688245002205 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 688245002206 cyanophycin synthetase; Provisional; Region: PRK14016 688245002207 ATP-grasp domain; Region: ATP-grasp_4; cl17255 688245002208 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3416 688245002209 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 688245002210 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 688245002211 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245002212 Walker A/P-loop; other site 688245002213 ATP binding site [chemical binding]; other site 688245002214 Q-loop/lid; other site 688245002215 ABC transporter signature motif; other site 688245002216 Walker B; other site 688245002217 D-loop; other site 688245002218 H-loop/switch region; other site 688245002219 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 688245002220 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; cd00051 688245002221 EF-hand domain pair; Region: EF-hand_7; pfam13499 688245002222 Ca2+ binding site [ion binding]; other site 688245002223 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 688245002224 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 688245002225 type II secretion system protein F; Region: GspF; TIGR02120 688245002226 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 688245002227 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 688245002228 short chain dehydrogenase; Provisional; Region: PRK06172 688245002229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245002230 NAD(P) binding site [chemical binding]; other site 688245002231 active site 688245002232 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 688245002233 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 688245002234 putative C-terminal domain interface [polypeptide binding]; other site 688245002235 putative GSH binding site (G-site) [chemical binding]; other site 688245002236 putative dimer interface [polypeptide binding]; other site 688245002237 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 688245002238 dimer interface [polypeptide binding]; other site 688245002239 N-terminal domain interface [polypeptide binding]; other site 688245002240 putative substrate binding pocket (H-site) [chemical binding]; other site 688245002241 Predicted transcriptional regulator [Transcription]; Region: COG2378 688245002242 HTH domain; Region: HTH_11; pfam08279 688245002243 WYL domain; Region: WYL; pfam13280 688245002244 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 688245002245 ABC transporter C family member; Provisional; Region: PLN03232 688245002246 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 688245002247 type II secretion system protein E; Region: type_II_gspE; TIGR02533 688245002248 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 688245002249 Walker A motif; other site 688245002250 ATP binding site [chemical binding]; other site 688245002251 Walker B motif; other site 688245002252 type II secretion system protein D; Region: type_II_gspD; TIGR02517 688245002253 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 688245002254 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 688245002255 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 688245002256 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 688245002257 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 688245002258 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 688245002259 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 688245002260 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 688245002261 GspL periplasmic domain; Region: GspL_C; cl14909 688245002262 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl19066 688245002263 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 688245002264 type II secretion system protein J; Region: gspJ; TIGR01711 688245002265 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 688245002266 type II secretion system protein I; Region: gspI; TIGR01707 688245002267 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 688245002268 Type II transport protein GspH; Region: GspH; pfam12019 688245002269 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 688245002270 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 688245002271 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 688245002272 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 688245002273 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 688245002274 cobalamin synthase; Reviewed; Region: cobS; PRK00235 688245002275 threonine dehydratase; Reviewed; Region: PRK09224 688245002276 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 688245002277 tetramer interface [polypeptide binding]; other site 688245002278 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245002279 catalytic residue [active] 688245002280 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 688245002281 putative Ile/Val binding site [chemical binding]; other site 688245002282 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 688245002283 putative Ile/Val binding site [chemical binding]; other site 688245002284 OsmC-like protein; Region: OsmC; cl00767 688245002285 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 688245002286 diiron binding motif [ion binding]; other site 688245002287 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 688245002288 trimer interface [polypeptide binding]; other site 688245002289 eyelet of channel; other site 688245002290 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 688245002291 trimer interface [polypeptide binding]; other site 688245002292 eyelet of channel; other site 688245002293 chaperonin GroEL; Reviewed; Region: groEL; PRK12850 688245002294 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 688245002295 ring oligomerisation interface [polypeptide binding]; other site 688245002296 ATP/Mg binding site [chemical binding]; other site 688245002297 stacking interactions; other site 688245002298 hinge regions; other site 688245002299 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 688245002300 oligomerisation interface [polypeptide binding]; other site 688245002301 mobile loop; other site 688245002302 roof hairpin; other site 688245002303 OsmC-like protein; Region: OsmC; cl00767 688245002304 CheW-like domain; Region: CheW; pfam01584 688245002305 H-NS histone family; Region: Histone_HNS; pfam00816 688245002306 Domain in histone-like proteins of HNS family; Region: HNS; cl19571 688245002307 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 688245002308 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245002309 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 688245002310 Coenzyme A binding pocket [chemical binding]; other site 688245002311 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 688245002312 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 688245002313 active site 688245002314 nucleotide binding site [chemical binding]; other site 688245002315 HIGH motif; other site 688245002316 KMSKS motif; other site 688245002317 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 688245002318 nudix motif; other site 688245002319 NAD synthetase; Provisional; Region: PRK13981 688245002320 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 688245002321 multimer interface [polypeptide binding]; other site 688245002322 active site 688245002323 catalytic triad [active] 688245002324 protein interface 1 [polypeptide binding]; other site 688245002325 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 688245002326 homodimer interface [polypeptide binding]; other site 688245002327 NAD binding pocket [chemical binding]; other site 688245002328 ATP binding pocket [chemical binding]; other site 688245002329 Mg binding site [ion binding]; other site 688245002330 active-site loop [active] 688245002331 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 688245002332 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 688245002333 active site 688245002334 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 688245002335 catalytic triad [active] 688245002336 conserved cis-peptide bond; other site 688245002337 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; cd02883 688245002338 nudix motif; other site 688245002339 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 688245002340 S-adenosylmethionine synthetase; Validated; Region: PRK05250 688245002341 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 688245002342 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 688245002343 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 688245002344 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 688245002345 putative acyl-acceptor binding pocket; other site 688245002346 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 688245002347 putative acyl-acceptor binding pocket; other site 688245002348 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245002349 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 688245002350 Predicted GTPase [General function prediction only]; Region: COG0218 688245002351 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 688245002352 G1 box; other site 688245002353 GTP/Mg2+ binding site [chemical binding]; other site 688245002354 Switch I region; other site 688245002355 G2 box; other site 688245002356 G3 box; other site 688245002357 Switch II region; other site 688245002358 G4 box; other site 688245002359 G5 box; other site 688245002360 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 688245002361 Cytochrome c553 [Energy production and conversion]; Region: COG2863 688245002362 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 688245002363 Cytochrome c; Region: Cytochrom_C; cl11414 688245002364 ResB-like family; Region: ResB; pfam05140 688245002365 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 688245002366 TMAO/DMSO reductase; Reviewed; Region: PRK05363 688245002367 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 688245002368 Moco binding site; other site 688245002369 metal coordination site [ion binding]; other site 688245002370 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 688245002371 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 688245002372 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 688245002373 Frataxin-like domain; Region: Frataxin_Cyay; pfam01491 688245002374 putative iron binding site [ion binding]; other site 688245002375 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 688245002376 Transglycosylase; Region: Transgly; pfam00912 688245002377 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 688245002378 Type IV pilus assembly protein PilM; Region: PilM_2; pfam11104 688245002379 Cell division protein FtsA; Region: FtsA; cl17206 688245002380 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 688245002381 nucleotide binding site [chemical binding]; other site 688245002382 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 688245002383 Pilus assembly protein, PilO; Region: PilO; pfam04350 688245002384 Pilus assembly protein, PilP; Region: PilP; pfam04351 688245002385 AMIN domain; Region: AMIN; pfam11741 688245002386 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 688245002387 Secretin and TonB N terminus short domain; Region: STN; smart00965 688245002388 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 688245002389 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 688245002390 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 688245002391 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 688245002392 ADP binding site [chemical binding]; other site 688245002393 magnesium binding site [ion binding]; other site 688245002394 putative shikimate binding site; other site 688245002395 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 688245002396 active site 688245002397 dimer interface [polypeptide binding]; other site 688245002398 metal binding site [ion binding]; metal-binding site 688245002399 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 688245002400 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 688245002401 Zn2+ binding site [ion binding]; other site 688245002402 Mg2+ binding site [ion binding]; other site 688245002403 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 688245002404 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 688245002405 Methyltransferase domain; Region: Methyltransf_32; pfam13679 688245002406 Methyltransferase domain; Region: Methyltransf_31; pfam13847 688245002407 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 688245002408 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 688245002409 active site 688245002410 dimer interface [polypeptide binding]; other site 688245002411 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 688245002412 dimer interface [polypeptide binding]; other site 688245002413 active site 688245002414 transaldolase-like protein; Provisional; Region: PTZ00411 688245002415 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 688245002416 active site 688245002417 dimer interface [polypeptide binding]; other site 688245002418 catalytic residue [active] 688245002419 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 688245002420 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 688245002421 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 688245002422 putative active site [active] 688245002423 acetoin reductase; Validated; Region: PRK08643 688245002424 classical (c) SDRs; Region: SDR_c; cd05233 688245002425 NAD(P) binding site [chemical binding]; other site 688245002426 active site 688245002427 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245002428 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 688245002429 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 688245002430 dimer interface [polypeptide binding]; other site 688245002431 active site 688245002432 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 688245002433 Coenzyme A transferase; Region: CoA_trans; cl17247 688245002434 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 688245002435 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 688245002436 Bacterial transcriptional regulator; Region: IclR; pfam01614 688245002437 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 688245002438 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 688245002439 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 688245002440 active site 688245002441 dimer interface [polypeptide binding]; other site 688245002442 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 688245002443 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 688245002444 active site 688245002445 FMN binding site [chemical binding]; other site 688245002446 substrate binding site [chemical binding]; other site 688245002447 3Fe-4S cluster binding site [ion binding]; other site 688245002448 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 688245002449 domain interface; other site 688245002450 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 688245002451 Dihydroprymidine dehydrogenase domain II, 4Fe-4S cluster; Region: Fer4_20; pfam14691 688245002452 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 688245002453 Uncharacterized conserved protein [Function unknown]; Region: COG3868 688245002454 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 688245002455 putative active site [active] 688245002456 Tetratricopeptide repeat; Region: TPR_15; pfam13429 688245002457 Predicted integral membrane protein [Function unknown]; Region: COG5616 688245002458 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 688245002459 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_3; cd03813 688245002460 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 688245002461 Predicted membrane protein [Function unknown]; Region: COG4267 688245002462 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 688245002463 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 688245002464 substrate binding pocket [chemical binding]; other site 688245002465 membrane-bound complex binding site; other site 688245002466 hinge residues; other site 688245002467 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 688245002468 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 688245002469 dimer interface [polypeptide binding]; other site 688245002470 conserved gate region; other site 688245002471 putative PBP binding loops; other site 688245002472 ABC-ATPase subunit interface; other site 688245002473 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 688245002474 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 688245002475 Walker A/P-loop; other site 688245002476 ATP binding site [chemical binding]; other site 688245002477 Q-loop/lid; other site 688245002478 ABC transporter signature motif; other site 688245002479 Walker B; other site 688245002480 D-loop; other site 688245002481 H-loop/switch region; other site 688245002482 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 688245002483 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 688245002484 Walker A/P-loop; other site 688245002485 ATP binding site [chemical binding]; other site 688245002486 Q-loop/lid; other site 688245002487 ABC transporter signature motif; other site 688245002488 Walker B; other site 688245002489 D-loop; other site 688245002490 H-loop/switch region; other site 688245002491 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 688245002492 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 688245002493 mce related protein; Region: MCE; pfam02470 688245002494 VacJ like lipoprotein; Region: VacJ; cl01073 688245002495 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 688245002496 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 688245002497 anti sigma factor interaction site; other site 688245002498 regulatory phosphorylation site [posttranslational modification]; other site 688245002499 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 688245002500 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 688245002501 Walker A/P-loop; other site 688245002502 ATP binding site [chemical binding]; other site 688245002503 Q-loop/lid; other site 688245002504 ABC transporter signature motif; other site 688245002505 Walker B; other site 688245002506 D-loop; other site 688245002507 H-loop/switch region; other site 688245002508 ABC-2 type transporter; Region: ABC2_membrane; cl17235 688245002509 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 688245002510 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 688245002511 EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase); Region: EPSP_synthase; pfam00275 688245002512 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 688245002513 hinge; other site 688245002514 active site 688245002515 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 688245002516 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 688245002517 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 688245002518 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 688245002519 NAD binding site [chemical binding]; other site 688245002520 dimerization interface [polypeptide binding]; other site 688245002521 product binding site; other site 688245002522 substrate binding site [chemical binding]; other site 688245002523 zinc binding site [ion binding]; other site 688245002524 catalytic residues [active] 688245002525 Beta-lactamase; Region: Beta-lactamase; pfam00144 688245002526 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 688245002527 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 688245002528 putative active site [active] 688245002529 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 688245002530 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 688245002531 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245002532 homodimer interface [polypeptide binding]; other site 688245002533 catalytic residue [active] 688245002534 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 688245002535 putative active site pocket [active] 688245002536 4-fold oligomerization interface [polypeptide binding]; other site 688245002537 metal binding residues [ion binding]; metal-binding site 688245002538 3-fold/trimer interface [polypeptide binding]; other site 688245002539 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 688245002540 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 688245002541 putative active site [active] 688245002542 oxyanion strand; other site 688245002543 catalytic triad [active] 688245002544 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 688245002545 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 688245002546 catalytic residues [active] 688245002547 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 688245002548 active site 688245002549 phosphate binding residues; other site 688245002550 catalytic residues [active] 688245002551 hypothetical protein; Provisional; Region: PRK09936 688245002552 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 688245002553 NodB motif; other site 688245002554 putative active site [active] 688245002555 putative catalytic site [active] 688245002556 putative Zn binding site [ion binding]; other site 688245002557 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 688245002558 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 688245002559 binding surface 688245002560 TPR motif; other site 688245002561 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 688245002562 bacteriophage N4 adsorption protein B; Provisional; Region: PRK14716 688245002563 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK11234 688245002564 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 688245002565 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 688245002566 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 688245002567 active site 688245002568 homodimer interface [polypeptide binding]; other site 688245002569 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 688245002570 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 688245002571 active site 688245002572 substrate binding site [chemical binding]; other site 688245002573 metal binding site [ion binding]; metal-binding site 688245002574 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 688245002575 substrate binding site [chemical binding]; other site 688245002576 glutamase interaction surface [polypeptide binding]; other site 688245002577 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 688245002578 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 688245002579 metal binding site [ion binding]; metal-binding site 688245002580 Predicted membrane protein [Function unknown]; Region: COG3671 688245002581 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 688245002582 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 688245002583 active site 688245002584 nucleophile elbow; other site 688245002585 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 688245002586 nucleotide binding site/active site [active] 688245002587 HIT family signature motif; other site 688245002588 catalytic residue [active] 688245002589 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 688245002590 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 688245002591 sec-independent translocase; Provisional; Region: tatB; PRK01919 688245002592 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 688245002593 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 688245002594 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 688245002595 PDZ domain of trypsin-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 688245002596 protein binding site [polypeptide binding]; other site 688245002597 metabolite-proton symporter; Region: 2A0106; TIGR00883 688245002598 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 688245002599 putative substrate translocation pore; other site 688245002600 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 688245002601 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245002602 DNA-binding site [nucleotide binding]; DNA binding site 688245002603 FCD domain; Region: FCD; pfam07729 688245002604 methylmalonyl-CoA decarboxylase; Provisional; Region: PRK11423 688245002605 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 688245002606 substrate binding site [chemical binding]; other site 688245002607 oxyanion hole (OAH) forming residues; other site 688245002608 trimer interface [polypeptide binding]; other site 688245002609 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245002610 malonyl-CoA synthase; Validated; Region: PRK07514 688245002611 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 688245002612 acyl-activating enzyme (AAE) consensus motif; other site 688245002613 active site 688245002614 AMP binding site [chemical binding]; other site 688245002615 CoA binding site [chemical binding]; other site 688245002616 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 688245002617 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 688245002618 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 688245002619 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 688245002620 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 688245002621 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 688245002622 [2Fe-2S] cluster binding site [ion binding]; other site 688245002623 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 688245002624 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 688245002625 Qi binding site; other site 688245002626 intrachain domain interface; other site 688245002627 interchain domain interface [polypeptide binding]; other site 688245002628 heme bH binding site [chemical binding]; other site 688245002629 heme bL binding site [chemical binding]; other site 688245002630 Qo binding site; other site 688245002631 interchain domain interface [polypeptide binding]; other site 688245002632 intrachain domain interface; other site 688245002633 Qi binding site; other site 688245002634 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 688245002635 Qo binding site; other site 688245002636 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 688245002637 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 688245002638 stringent starvation protein A; Provisional; Region: sspA; PRK09481 688245002639 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 688245002640 C-terminal domain interface [polypeptide binding]; other site 688245002641 putative GSH binding site (G-site) [chemical binding]; other site 688245002642 dimer interface [polypeptide binding]; other site 688245002643 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 688245002644 dimer interface [polypeptide binding]; other site 688245002645 N-terminal domain interface [polypeptide binding]; other site 688245002646 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 688245002647 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 688245002648 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; cl17251 688245002649 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 688245002650 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 688245002651 SEC-C motif; Region: SEC-C; pfam02810 688245002652 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 688245002653 heterotetramer interface [polypeptide binding]; other site 688245002654 active site pocket [active] 688245002655 cleavage site 688245002656 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 688245002657 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 688245002658 Walker A motif; other site 688245002659 ATP binding site [chemical binding]; other site 688245002660 Walker B motif; other site 688245002661 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 688245002662 active site 688245002663 8-oxo-dGMP binding site [chemical binding]; other site 688245002664 nudix motif; other site 688245002665 metal binding site [ion binding]; metal-binding site 688245002666 Domain of unknown function (DUF329); Region: DUF329; pfam03884 688245002667 hypothetical protein; Provisional; Region: PRK05287 688245002668 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 688245002669 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 688245002670 CoA-binding site [chemical binding]; other site 688245002671 ATP-binding [chemical binding]; other site 688245002672 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 688245002673 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 688245002674 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 688245002675 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 688245002676 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 688245002677 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 688245002678 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 688245002679 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 688245002680 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 688245002681 Walker A motif; other site 688245002682 ATP binding site [chemical binding]; other site 688245002683 Walker B motif; other site 688245002684 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 688245002685 substrate binding pocket [chemical binding]; other site 688245002686 chain length determination region; other site 688245002687 substrate-Mg2+ binding site; other site 688245002688 catalytic residues [active] 688245002689 aspartate-rich region 1; other site 688245002690 active site lid residues [active] 688245002691 aspartate-rich region 2; other site 688245002692 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 688245002693 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 688245002694 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 688245002695 GTPase CgtA; Reviewed; Region: obgE; PRK12299 688245002696 GTP1/OBG; Region: GTP1_OBG; pfam01018 688245002697 Obg GTPase; Region: Obg; cd01898 688245002698 G1 box; other site 688245002699 GTP/Mg2+ binding site [chemical binding]; other site 688245002700 Switch I region; other site 688245002701 G2 box; other site 688245002702 G3 box; other site 688245002703 Switch II region; other site 688245002704 G4 box; other site 688245002705 G5 box; other site 688245002706 gamma-glutamyl kinase; Provisional; Region: PRK05429 688245002707 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 688245002708 nucleotide binding site [chemical binding]; other site 688245002709 homotetrameric interface [polypeptide binding]; other site 688245002710 putative phosphate binding site [ion binding]; other site 688245002711 putative allosteric binding site; other site 688245002712 PUA domain; Region: PUA; pfam01472 688245002713 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 688245002714 putative active site [active] 688245002715 Ap4A binding site [chemical binding]; other site 688245002716 nudix motif; other site 688245002717 putative metal binding site [ion binding]; other site 688245002718 prolyl-tRNA synthetase; Provisional; Region: PRK09194 688245002719 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 688245002720 dimer interface [polypeptide binding]; other site 688245002721 motif 1; other site 688245002722 active site 688245002723 motif 2; other site 688245002724 motif 3; other site 688245002725 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 688245002726 anticodon binding site; other site 688245002727 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 688245002728 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 688245002729 N-acetyl-D-glucosamine binding site [chemical binding]; other site 688245002730 catalytic residue [active] 688245002731 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 688245002732 Domain of unknown function DUF21; Region: DUF21; pfam01595 688245002733 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 688245002734 Transporter associated domain; Region: CorC_HlyC; smart01091 688245002735 RNAse HI family that includes archaeal, some bacterial as well as plant RNase HI; Region: RNase_HI_like; cd09279 688245002736 active site 688245002737 RNA/DNA hybrid binding site [nucleotide binding]; other site 688245002738 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 688245002739 putative GSH binding site [chemical binding]; other site 688245002740 catalytic residues [active] 688245002741 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 688245002742 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 688245002743 S-adenosylmethionine binding site [chemical binding]; other site 688245002744 SUKH-3 immunity protein; Region: SUKH-3; pfam14433 688245002745 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 688245002746 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 688245002747 peptide chain release factor 1; Validated; Region: prfA; PRK00591 688245002748 This domain is found in peptide chain release factors; Region: PCRF; smart00937 688245002749 RF-1 domain; Region: RF-1; pfam00472 688245002750 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 688245002751 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 688245002752 tRNA; other site 688245002753 putative tRNA binding site [nucleotide binding]; other site 688245002754 putative NADP binding site [chemical binding]; other site 688245002755 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 688245002756 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 688245002757 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245002758 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 688245002759 dimerization interface [polypeptide binding]; other site 688245002760 substrate binding pocket [chemical binding]; other site 688245002761 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245002762 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 688245002763 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 688245002764 Sel1-like repeats; Region: SEL1; smart00671 688245002765 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 688245002766 Sel1-like repeats; Region: SEL1; smart00671 688245002767 Sel1-like repeats; Region: SEL1; smart00671 688245002768 Sel1-like repeats; Region: SEL1; smart00671 688245002769 Sel1-like repeats; Region: SEL1; smart00671 688245002770 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 688245002771 Sel1-like repeats; Region: SEL1; smart00671 688245002772 Sel1-like repeats; Region: SEL1; smart00671 688245002773 Sel1-like repeats; Region: SEL1; smart00671 688245002774 Sel1-like repeats; Region: SEL1; smart00671 688245002775 Sel1-like repeats; Region: SEL1; smart00671 688245002776 Sel1-like repeats; Region: SEL1; smart00671 688245002777 Sel1-like repeats; Region: SEL1; smart00671 688245002778 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245002779 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 688245002780 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 688245002781 active site 688245002782 catalytic site [active] 688245002783 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 688245002784 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 688245002785 Walker A/P-loop; other site 688245002786 ATP binding site [chemical binding]; other site 688245002787 Q-loop/lid; other site 688245002788 ABC transporter signature motif; other site 688245002789 Walker B; other site 688245002790 D-loop; other site 688245002791 H-loop/switch region; other site 688245002792 TOBE domain; Region: TOBE_2; pfam08402 688245002793 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 688245002794 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 688245002795 dimer interface [polypeptide binding]; other site 688245002796 conserved gate region; other site 688245002797 putative PBP binding loops; other site 688245002798 ABC-ATPase subunit interface; other site 688245002799 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 688245002800 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 688245002801 dimer interface [polypeptide binding]; other site 688245002802 conserved gate region; other site 688245002803 putative PBP binding loops; other site 688245002804 ABC-ATPase subunit interface; other site 688245002805 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 688245002806 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 688245002807 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 688245002808 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 688245002809 FAD binding domain; Region: FAD_binding_4; pfam01565 688245002810 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 688245002811 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 688245002812 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 688245002813 Cysteine-rich domain; Region: CCG; pfam02754 688245002814 Cysteine-rich domain; Region: CCG; pfam02754 688245002815 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 688245002816 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 688245002817 HIT family signature motif; other site 688245002818 catalytic residue [active] 688245002819 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 688245002820 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 688245002821 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 688245002822 S-adenosylmethionine binding site [chemical binding]; other site 688245002823 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 688245002824 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 688245002825 SCP-2 sterol transfer family; Region: SCP2; cl01225 688245002826 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 688245002827 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 688245002828 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 688245002829 Na binding site [ion binding]; other site 688245002830 putative glycosylation site [posttranslational modification]; other site 688245002831 putative glycosylation site [posttranslational modification]; other site 688245002832 Zinc ribbon domain; Region: Zn-ribbon_8; cl00993 688245002833 Uncharacterized conserved protein [Function unknown]; Region: COG2928 688245002834 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 688245002835 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 688245002836 dimer interface [polypeptide binding]; other site 688245002837 anticodon binding site; other site 688245002838 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 688245002839 homodimer interface [polypeptide binding]; other site 688245002840 motif 1; other site 688245002841 active site 688245002842 motif 2; other site 688245002843 motif 3; other site 688245002844 dihydroneopterin triphosphate pyrophosphatase; Provisional; Region: nudB; PRK09438 688245002845 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 688245002846 putative catalytic site [active] 688245002847 putative metal binding site [ion binding]; other site 688245002848 putative phosphate binding site [ion binding]; other site 688245002849 GTP cyclohydrolase I; Region: GTP_cyclohydroI; pfam01227 688245002850 active site 688245002851 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 688245002852 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 688245002853 EamA-like transporter family; Region: EamA; pfam00892 688245002854 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 688245002855 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 688245002856 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_6; cd08494 688245002857 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 688245002858 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 688245002859 Walker A/P-loop; other site 688245002860 ATP binding site [chemical binding]; other site 688245002861 Q-loop/lid; other site 688245002862 ABC transporter signature motif; other site 688245002863 Walker B; other site 688245002864 D-loop; other site 688245002865 H-loop/switch region; other site 688245002866 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 688245002867 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 688245002868 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 688245002869 Walker A/P-loop; other site 688245002870 ATP binding site [chemical binding]; other site 688245002871 Q-loop/lid; other site 688245002872 ABC transporter signature motif; other site 688245002873 Walker B; other site 688245002874 D-loop; other site 688245002875 H-loop/switch region; other site 688245002876 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 688245002877 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 688245002878 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 688245002879 dimer interface [polypeptide binding]; other site 688245002880 conserved gate region; other site 688245002881 putative PBP binding loops; other site 688245002882 ABC-ATPase subunit interface; other site 688245002883 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 688245002884 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 688245002885 dimer interface [polypeptide binding]; other site 688245002886 conserved gate region; other site 688245002887 putative PBP binding loops; other site 688245002888 ABC-ATPase subunit interface; other site 688245002889 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 688245002890 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 688245002891 putative active site [active] 688245002892 catalytic residue [active] 688245002893 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 688245002894 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 688245002895 5S rRNA interface [nucleotide binding]; other site 688245002896 CTC domain interface [polypeptide binding]; other site 688245002897 L16 interface [polypeptide binding]; other site 688245002898 Ribosomal protein TL5, C-terminal domain; Region: Ribosomal_TL5_C; pfam14693 688245002899 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 688245002900 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 688245002901 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 688245002902 active site 688245002903 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 688245002904 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 688245002905 Outer membrane lipoprotein LolB; Region: LolB; cl19307 688245002906 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 688245002907 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 688245002908 binding surface 688245002909 TPR motif; other site 688245002910 Tetratricopeptide repeat; Region: TPR_12; pfam13424 688245002911 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 688245002912 binding surface 688245002913 TPR motif; other site 688245002914 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 688245002915 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 688245002916 DNA binding site [nucleotide binding] 688245002917 catalytic residue [active] 688245002918 H2TH interface [polypeptide binding]; other site 688245002919 putative catalytic residues [active] 688245002920 turnover-facilitating residue; other site 688245002921 intercalation triad [nucleotide binding]; other site 688245002922 8OG recognition residue [nucleotide binding]; other site 688245002923 putative reading head residues; other site 688245002924 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 688245002925 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 688245002926 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 688245002927 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 688245002928 G3 box; other site 688245002929 Switch II region; other site 688245002930 GTP/Mg2+ binding site [chemical binding]; other site 688245002931 G4 box; other site 688245002932 G5 box; other site 688245002933 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 688245002934 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 688245002935 minor groove reading motif; other site 688245002936 helix-hairpin-helix signature motif; other site 688245002937 substrate binding pocket [chemical binding]; other site 688245002938 active site 688245002939 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 688245002940 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 688245002941 DNA binding and oxoG recognition site [nucleotide binding] 688245002942 inner membrane protein; Provisional; Region: PRK11715 688245002943 sensory histidine kinase CreC; Provisional; Region: PRK11100 688245002944 HAMP domain; Region: HAMP; pfam00672 688245002945 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 688245002946 dimer interface [polypeptide binding]; other site 688245002947 phosphorylation site [posttranslational modification] 688245002948 Haemolytic domain; Region: Haemolytic; cl00506 688245002949 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 688245002950 ATP binding site [chemical binding]; other site 688245002951 Mg2+ binding site [ion binding]; other site 688245002952 G-X-G motif; other site 688245002953 DNA-binding response regulator CreB; Provisional; Region: PRK11083 688245002954 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 688245002955 active site 688245002956 phosphorylation site [posttranslational modification] 688245002957 intermolecular recognition site; other site 688245002958 dimerization interface [polypeptide binding]; other site 688245002959 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 688245002960 DNA binding site [nucleotide binding] 688245002961 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 688245002962 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 688245002963 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 688245002964 Walker A/P-loop; other site 688245002965 ATP binding site [chemical binding]; other site 688245002966 Q-loop/lid; other site 688245002967 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 688245002968 ABC transporter signature motif; other site 688245002969 Walker B; other site 688245002970 D-loop; other site 688245002971 H-loop/switch region; other site 688245002972 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 688245002973 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 688245002974 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 688245002975 HrcA protein C terminal domain; Region: HrcA; pfam01628 688245002976 CHASE2 domain; Region: CHASE2; pfam05226 688245002977 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 688245002978 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 688245002979 dimer interface [polypeptide binding]; other site 688245002980 phosphorylation site [posttranslational modification] 688245002981 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 688245002982 ATP binding site [chemical binding]; other site 688245002983 Mg2+ binding site [ion binding]; other site 688245002984 G-X-G motif; other site 688245002985 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 688245002986 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 688245002987 FecR protein; Region: FecR; pfam04773 688245002988 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 688245002989 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 688245002990 active site 688245002991 phosphorylation site [posttranslational modification] 688245002992 intermolecular recognition site; other site 688245002993 dimerization interface [polypeptide binding]; other site 688245002994 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 688245002995 DNA binding site [nucleotide binding] 688245002996 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 688245002997 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 688245002998 active site 688245002999 HIGH motif; other site 688245003000 dimer interface [polypeptide binding]; other site 688245003001 KMSKS motif; other site 688245003002 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 688245003003 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 688245003004 Peptidase family M50; Region: Peptidase_M50; pfam02163 688245003005 active site 688245003006 putative substrate binding region [chemical binding]; other site 688245003007 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 688245003008 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 688245003009 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 688245003010 dimer interface [polypeptide binding]; other site 688245003011 putative CheW interface [polypeptide binding]; other site 688245003012 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 688245003013 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 688245003014 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 688245003015 active site 688245003016 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 688245003017 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 688245003018 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 688245003019 dimerization interface [polypeptide binding]; other site 688245003020 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 688245003021 dimer interface [polypeptide binding]; other site 688245003022 putative CheW interface [polypeptide binding]; other site 688245003023 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 688245003024 DHH family; Region: DHH; pfam01368 688245003025 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; cl03075 688245003026 DHHA1 domain; Region: DHHA1; pfam02272 688245003027 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 688245003028 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 688245003029 Sulfatase; Region: Sulfatase; pfam00884 688245003030 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245003031 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245003032 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 688245003033 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 688245003034 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 688245003035 FtsX-like permease family; Region: FtsX; pfam02687 688245003036 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 688245003037 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 688245003038 Walker A/P-loop; other site 688245003039 ATP binding site [chemical binding]; other site 688245003040 Q-loop/lid; other site 688245003041 ABC transporter signature motif; other site 688245003042 Walker B; other site 688245003043 D-loop; other site 688245003044 H-loop/switch region; other site 688245003045 PAS domain; Region: PAS_9; pfam13426 688245003046 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 688245003047 putative active site [active] 688245003048 heme pocket [chemical binding]; other site 688245003049 PAS domain; Region: PAS_9; pfam13426 688245003050 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 688245003051 putative active site [active] 688245003052 heme pocket [chemical binding]; other site 688245003053 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 688245003054 dimer interface [polypeptide binding]; other site 688245003055 putative CheW interface [polypeptide binding]; other site 688245003056 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 688245003057 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 688245003058 active site 688245003059 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 688245003060 putative active site [active] 688245003061 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 688245003062 FlxA-like protein; Region: FlxA; pfam14282 688245003063 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 688245003064 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 688245003065 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 688245003066 Walker A motif; other site 688245003067 ATP binding site [chemical binding]; other site 688245003068 Walker B motif; other site 688245003069 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 688245003070 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 688245003071 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 688245003072 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 688245003073 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 688245003074 putative NAD(P) binding site [chemical binding]; other site 688245003075 putative active site [active] 688245003076 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 688245003077 EamA-like transporter family; Region: EamA; pfam00892 688245003078 EamA-like transporter family; Region: EamA; pfam00892 688245003079 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 688245003080 nudix motif; other site 688245003081 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 688245003082 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 688245003083 PhoU domain; Region: PhoU; pfam01895 688245003084 PhoU domain; Region: PhoU; pfam01895 688245003085 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 688245003086 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 688245003087 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 688245003088 active site 688245003089 HIGH motif; other site 688245003090 KMSKS motif; other site 688245003091 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 688245003092 tRNA binding surface [nucleotide binding]; other site 688245003093 anticodon binding site; other site 688245003094 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 688245003095 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 688245003096 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 688245003097 active site 688245003098 Riboflavin kinase; Region: Flavokinase; smart00904 688245003099 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 688245003100 active site 688245003101 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 688245003102 nucleoside/Zn binding site; other site 688245003103 dimer interface [polypeptide binding]; other site 688245003104 catalytic motif [active] 688245003105 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 688245003106 active site 688245003107 homotetramer interface [polypeptide binding]; other site 688245003108 Transthyretin_like. This domain is present in the transthyretin-like protein (TLP) family which includes transthyretin (TTR) and a transthyretin-related protein called 5-hydroxyisourate hydrolase (HIUase). TTR and HIUase are homotetrameric proteins...; Region: Transthyretin_like; cl17222 688245003109 active site 688245003110 homotetramer interface [polypeptide binding]; other site 688245003111 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 688245003112 D-galactonate transporter; Region: 2A0114; TIGR00893 688245003113 putative substrate translocation pore; other site 688245003114 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245003115 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245003116 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 688245003117 dimerization interface [polypeptide binding]; other site 688245003118 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 688245003119 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 688245003120 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 688245003121 nucleoside/Zn binding site; other site 688245003122 dimer interface [polypeptide binding]; other site 688245003123 catalytic motif [active] 688245003124 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 688245003125 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 688245003126 active site 688245003127 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 688245003128 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245003129 active site 688245003130 Protein of unknown function, DUF480; Region: DUF480; pfam04337 688245003131 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 688245003132 active site 688245003133 substrate binding site [chemical binding]; other site 688245003134 cosubstrate binding site; other site 688245003135 catalytic site [active] 688245003136 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 688245003137 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 688245003138 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 688245003139 S-adenosylmethionine binding site [chemical binding]; other site 688245003140 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 688245003141 Di-iron ligands [ion binding]; other site 688245003142 Transposase; Region: DDE_Tnp_ISL3; pfam01610 688245003143 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 688245003144 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245003145 DNA-binding site [nucleotide binding]; DNA binding site 688245003146 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 688245003147 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245003148 homodimer interface [polypeptide binding]; other site 688245003149 catalytic residue [active] 688245003150 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 688245003151 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 688245003152 thioredoxin reductase; Provisional; Region: PRK10262 688245003153 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245003154 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 688245003155 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 688245003156 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 688245003157 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 688245003158 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 688245003159 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 688245003160 Branched-chain amino acid permeases [Amino acid transport and metabolism]; Region: BrnQ; COG1114 688245003161 recombination factor protein RarA; Reviewed; Region: PRK13342 688245003162 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 688245003163 Walker A motif; other site 688245003164 ATP binding site [chemical binding]; other site 688245003165 Walker B motif; other site 688245003166 arginine finger; other site 688245003167 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 688245003168 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 688245003169 TM-ABC transporter signature motif; other site 688245003170 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 688245003171 TM-ABC transporter signature motif; other site 688245003172 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 688245003173 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 688245003174 Walker A/P-loop; other site 688245003175 ATP binding site [chemical binding]; other site 688245003176 Q-loop/lid; other site 688245003177 ABC transporter signature motif; other site 688245003178 Walker B; other site 688245003179 D-loop; other site 688245003180 H-loop/switch region; other site 688245003181 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 688245003182 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 688245003183 Walker A/P-loop; other site 688245003184 ATP binding site [chemical binding]; other site 688245003185 Q-loop/lid; other site 688245003186 ABC transporter signature motif; other site 688245003187 Walker B; other site 688245003188 D-loop; other site 688245003189 H-loop/switch region; other site 688245003190 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 688245003191 TIGR00153 family protein; Region: TIGR00153 688245003192 Phosphate transporter family; Region: PHO4; pfam01384 688245003193 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245003194 metal binding site [ion binding]; metal-binding site 688245003195 active site 688245003196 I-site; other site 688245003197 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 688245003198 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 688245003199 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 688245003200 RimM N-terminal domain; Region: RimM; pfam01782 688245003201 PRC-barrel domain; Region: PRC; pfam05239 688245003202 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 688245003203 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 688245003204 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 688245003205 putative active site [active] 688245003206 putative CoA binding site [chemical binding]; other site 688245003207 nudix motif; other site 688245003208 metal binding site [ion binding]; metal-binding site 688245003209 CobD/Cbib protein; Region: CobD_Cbib; cl00561 688245003210 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 688245003211 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 688245003212 N-acetyl-D-glucosamine binding site [chemical binding]; other site 688245003213 catalytic residue [active] 688245003214 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 688245003215 GTPase RsgA; Reviewed; Region: PRK00098 688245003216 RNA binding site [nucleotide binding]; other site 688245003217 homodimer interface [polypeptide binding]; other site 688245003218 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 688245003219 GTPase/Zn-binding domain interface [polypeptide binding]; other site 688245003220 GTP/Mg2+ binding site [chemical binding]; other site 688245003221 G4 box; other site 688245003222 G5 box; other site 688245003223 G1 box; other site 688245003224 Switch I region; other site 688245003225 G2 box; other site 688245003226 G3 box; other site 688245003227 Switch II region; other site 688245003228 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; cd00488 688245003229 aromatic arch; other site 688245003230 DCoH dimer interaction site [polypeptide binding]; other site 688245003231 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 688245003232 DCoH tetramer interaction site [polypeptide binding]; other site 688245003233 substrate binding site [chemical binding]; other site 688245003234 Peptidase family M48; Region: Peptidase_M48; pfam01435 688245003235 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 688245003236 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 688245003237 catalytic site [active] 688245003238 putative active site [active] 688245003239 putative substrate binding site [chemical binding]; other site 688245003240 dimer interface [polypeptide binding]; other site 688245003241 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 688245003242 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 688245003243 ATP binding site [chemical binding]; other site 688245003244 Mg++ binding site [ion binding]; other site 688245003245 motif III; other site 688245003246 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 688245003247 nucleotide binding region [chemical binding]; other site 688245003248 ATP-binding site [chemical binding]; other site 688245003249 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 688245003250 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 688245003251 putative substrate translocation pore; other site 688245003252 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 688245003253 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 688245003254 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 688245003255 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 688245003256 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 688245003257 active site 688245003258 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 688245003259 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 688245003260 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 688245003261 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 688245003262 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 688245003263 Outer membrane efflux protein; Region: OEP; pfam02321 688245003264 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 688245003265 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 688245003266 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245003267 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 688245003268 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 688245003269 putative substrate translocation pore; other site 688245003270 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 688245003271 Part of AAA domain; Region: AAA_19; pfam13245 688245003272 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 688245003273 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 688245003274 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 688245003275 Phosphotransferase enzyme family; Region: APH; pfam01636 688245003276 putative active site [active] 688245003277 putative substrate binding site [chemical binding]; other site 688245003278 ATP binding site [chemical binding]; other site 688245003279 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 688245003280 DNA polymerase I; Provisional; Region: PRK05755 688245003281 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 688245003282 active site 688245003283 metal binding site 1 [ion binding]; metal-binding site 688245003284 putative 5' ssDNA interaction site; other site 688245003285 metal binding site 3; metal-binding site 688245003286 metal binding site 2 [ion binding]; metal-binding site 688245003287 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 688245003288 putative DNA binding site [nucleotide binding]; other site 688245003289 putative metal binding site [ion binding]; other site 688245003290 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 688245003291 active site 688245003292 catalytic site [active] 688245003293 substrate binding site [chemical binding]; other site 688245003294 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 688245003295 active site 688245003296 DNA binding site [nucleotide binding] 688245003297 catalytic site [active] 688245003298 AzlC protein; Region: AzlC; pfam03591 688245003299 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 688245003300 ZIP Zinc transporter; Region: Zip; cl00437 688245003301 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 688245003302 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 688245003303 active site 688245003304 phosphorylation site [posttranslational modification] 688245003305 intermolecular recognition site; other site 688245003306 dimerization interface [polypeptide binding]; other site 688245003307 LytTr DNA-binding domain; Region: LytTR; smart00850 688245003308 Histidine kinase; Region: His_kinase; pfam06580 688245003309 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 688245003310 ATP binding site [chemical binding]; other site 688245003311 Mg2+ binding site [ion binding]; other site 688245003312 G-X-G motif; other site 688245003313 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 688245003314 Multidrug resistance efflux transporter; Region: EmrE; cl19304 688245003315 argininosuccinate lyase; Provisional; Region: PRK00855 688245003316 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 688245003317 active sites [active] 688245003318 tetramer interface [polypeptide binding]; other site 688245003319 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245003320 Bacterial Ig-like domain; Region: Big_5; pfam13205 688245003321 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 688245003322 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 688245003323 MG2 domain; Region: A2M_N; pfam01835 688245003324 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 688245003325 Alpha-2-macroglobulin family; Region: A2M; pfam00207 688245003326 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 688245003327 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245003328 Walker A/P-loop; other site 688245003329 ATP binding site [chemical binding]; other site 688245003330 Q-loop/lid; other site 688245003331 ABC transporter signature motif; other site 688245003332 Walker B; other site 688245003333 D-loop; other site 688245003334 H-loop/switch region; other site 688245003335 TOBE domain; Region: TOBE_2; pfam08402 688245003336 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 688245003337 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 688245003338 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 688245003339 dimer interface [polypeptide binding]; other site 688245003340 conserved gate region; other site 688245003341 putative PBP binding loops; other site 688245003342 ABC-ATPase subunit interface; other site 688245003343 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 688245003344 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 688245003345 dimer interface [polypeptide binding]; other site 688245003346 conserved gate region; other site 688245003347 putative PBP binding loops; other site 688245003348 ABC-ATPase subunit interface; other site 688245003349 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 688245003350 active site 688245003351 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 688245003352 putative catalytic site [active] 688245003353 putative metal binding site [ion binding]; other site 688245003354 putative phosphate binding site [ion binding]; other site 688245003355 putative catalytic site [active] 688245003356 putative phosphate binding site [ion binding]; other site 688245003357 putative metal binding site [ion binding]; other site 688245003358 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 688245003359 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 688245003360 Transglycosylase; Region: Transgly; pfam00912 688245003361 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 688245003362 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 688245003363 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245003364 LysR family transcriptional regulator; Provisional; Region: PRK14997 688245003365 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 688245003366 putative effector binding pocket; other site 688245003367 dimerization interface [polypeptide binding]; other site 688245003368 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 688245003369 FMN binding site [chemical binding]; other site 688245003370 dimer interface [polypeptide binding]; other site 688245003371 EamA-like transporter family; Region: EamA; pfam00892 688245003372 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 688245003373 EamA-like transporter family; Region: EamA; pfam00892 688245003374 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 688245003375 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 688245003376 active site 688245003377 substrate binding site [chemical binding]; other site 688245003378 FMN binding site [chemical binding]; other site 688245003379 putative catalytic residues [active] 688245003380 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 688245003381 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245003382 DNA-binding site [nucleotide binding]; DNA binding site 688245003383 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 688245003384 L-lactate permease; Region: Lactate_perm; cl00701 688245003385 L-lactate permease; Region: Lactate_perm; cl00701 688245003386 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 688245003387 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 688245003388 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 688245003389 active site 688245003390 substrate binding site [chemical binding]; other site 688245003391 FMN binding site [chemical binding]; other site 688245003392 putative catalytic residues [active] 688245003393 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 688245003394 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 688245003395 EamA-like transporter family; Region: EamA; cl17759 688245003396 Multidrug resistance efflux transporter; Region: EmrE; cl19304 688245003397 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 688245003398 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 688245003399 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 688245003400 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 688245003401 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245003402 lysine transporter; Provisional; Region: PRK10836 688245003403 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 688245003404 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 688245003405 active site 688245003406 DNA polymerase IV; Validated; Region: PRK02406 688245003407 DNA binding site [nucleotide binding] 688245003408 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 688245003409 PAS fold; Region: PAS_3; pfam08447 688245003410 putative active site [active] 688245003411 heme pocket [chemical binding]; other site 688245003412 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 688245003413 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 688245003414 dimer interface [polypeptide binding]; other site 688245003415 putative CheW interface [polypeptide binding]; other site 688245003416 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 688245003417 Nitrile reductase, 7-cyano-7-deazaguanine-reductase N-term; Region: QueF_N; pfam14819 688245003418 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 688245003419 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 688245003420 hypothetical protein; Validated; Region: PRK02101 688245003421 ribonuclease E; Reviewed; Region: rne; PRK10811 688245003422 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 688245003423 homodimer interface [polypeptide binding]; other site 688245003424 oligonucleotide binding site [chemical binding]; other site 688245003425 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 688245003426 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 688245003427 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 688245003428 RNA binding surface [nucleotide binding]; other site 688245003429 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 688245003430 active site 688245003431 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 688245003432 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 688245003433 motif II; other site 688245003434 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; cd03467 688245003435 iron-sulfur cluster [ion binding]; other site 688245003436 [2Fe-2S] cluster binding site [ion binding]; other site 688245003437 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 688245003438 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 688245003439 tandem repeat interface [polypeptide binding]; other site 688245003440 oligomer interface [polypeptide binding]; other site 688245003441 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 688245003442 putative SAM binding site [chemical binding]; other site 688245003443 homodimer interface [polypeptide binding]; other site 688245003444 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 688245003445 active site 688245003446 dimer interface [polypeptide binding]; other site 688245003447 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 688245003448 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 688245003449 putative phosphate acyltransferase; Provisional; Region: PRK05331 688245003450 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 688245003451 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 688245003452 dimer interface [polypeptide binding]; other site 688245003453 active site 688245003454 CoA binding pocket [chemical binding]; other site 688245003455 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 688245003456 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245003457 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 688245003458 NAD(P) binding site [chemical binding]; other site 688245003459 active site 688245003460 acyl carrier protein; Provisional; Region: acpP; PRK00982 688245003461 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 688245003462 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 688245003463 dimer interface [polypeptide binding]; other site 688245003464 active site 688245003465 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 688245003466 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 688245003467 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 688245003468 DNA binding residues [nucleotide binding] 688245003469 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 688245003470 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 688245003471 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 688245003472 PDZ domain of trypsin-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 688245003473 protein binding site [polypeptide binding]; other site 688245003474 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 688245003475 GTP-binding protein LepA; Provisional; Region: PRK05433 688245003476 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 688245003477 G1 box; other site 688245003478 putative GEF interaction site [polypeptide binding]; other site 688245003479 GTP/Mg2+ binding site [chemical binding]; other site 688245003480 Switch I region; other site 688245003481 G2 box; other site 688245003482 G3 box; other site 688245003483 Switch II region; other site 688245003484 G4 box; other site 688245003485 G5 box; other site 688245003486 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 688245003487 Elongation Factor G, domain II; Region: EFG_II; pfam14492 688245003488 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 688245003489 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 688245003490 signal peptidase I; Provisional; Region: PRK10861 688245003491 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 688245003492 Catalytic site [active] 688245003493 ribonuclease III; Reviewed; Region: rnc; PRK00102 688245003494 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 688245003495 dimerization interface [polypeptide binding]; other site 688245003496 active site 688245003497 metal binding site [ion binding]; metal-binding site 688245003498 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 688245003499 dsRNA binding site [nucleotide binding]; other site 688245003500 GTPase Era; Reviewed; Region: era; PRK00089 688245003501 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 688245003502 G1 box; other site 688245003503 GTP/Mg2+ binding site [chemical binding]; other site 688245003504 Switch I region; other site 688245003505 G2 box; other site 688245003506 Switch II region; other site 688245003507 G3 box; other site 688245003508 G4 box; other site 688245003509 G5 box; other site 688245003510 KH domain; Region: KH_2; pfam07650 688245003511 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 688245003512 Recombination protein O N terminal; Region: RecO_N; pfam11967 688245003513 Recombination protein O C terminal; Region: RecO_C; pfam02565 688245003514 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 688245003515 active site 688245003516 hydrophilic channel; other site 688245003517 dimerization interface [polypeptide binding]; other site 688245003518 catalytic residues [active] 688245003519 active site lid [active] 688245003520 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 688245003521 beta-hexosaminidase; Provisional; Region: PRK05337 688245003522 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 688245003523 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 688245003524 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 688245003525 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 688245003526 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 688245003527 active site 688245003528 ADP/pyrophosphate binding site [chemical binding]; other site 688245003529 dimerization interface [polypeptide binding]; other site 688245003530 allosteric effector site; other site 688245003531 fructose-1,6-bisphosphate binding site; other site 688245003532 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 688245003533 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 688245003534 ATP-grasp domain; Region: ATP-grasp_4; cl17255 688245003535 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 688245003536 Mechanosensitive ion channel; Region: MS_channel; pfam00924 688245003537 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 688245003538 active site 688245003539 phosphorylation site [posttranslational modification] 688245003540 intermolecular recognition site; other site 688245003541 dimerization interface [polypeptide binding]; other site 688245003542 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245003543 metal binding site [ion binding]; metal-binding site 688245003544 active site 688245003545 I-site; other site 688245003546 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 688245003547 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 688245003548 dimer interface [polypeptide binding]; other site 688245003549 putative anticodon binding site; other site 688245003550 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 688245003551 motif 1; other site 688245003552 active site 688245003553 motif 2; other site 688245003554 motif 3; other site 688245003555 ATP-dependent protease La (LON) domain; Region: LON; cl19481 688245003556 YGGT family; Region: YGGT; pfam02325 688245003557 YGGT family; Region: YGGT; pfam02325 688245003558 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 688245003559 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 688245003560 substrate binding site [chemical binding]; other site 688245003561 active site 688245003562 catalytic residues [active] 688245003563 heterodimer interface [polypeptide binding]; other site 688245003564 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 688245003565 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245003566 catalytic residue [active] 688245003567 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 688245003568 active site 688245003569 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 688245003570 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 688245003571 dimerization interface 3.5A [polypeptide binding]; other site 688245003572 active site 688245003573 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 688245003574 FimV N-terminal domain; Region: FimV_core; TIGR03505 688245003575 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 688245003576 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 688245003577 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 688245003578 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 688245003579 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 688245003580 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 688245003581 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 688245003582 substrate binding site [chemical binding]; other site 688245003583 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 688245003584 substrate binding site [chemical binding]; other site 688245003585 ligand binding site [chemical binding]; other site 688245003586 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245003587 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245003588 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 688245003589 putative dimerization interface [polypeptide binding]; other site 688245003590 Sel1-like repeats; Region: SEL1; smart00671 688245003591 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 688245003592 Sel1-like repeats; Region: SEL1; smart00671 688245003593 Sel1-like repeats; Region: SEL1; smart00671 688245003594 Sel1-like repeats; Region: SEL1; smart00671 688245003595 Sel1-like repeats; Region: SEL1; smart00671 688245003596 Sel1-like repeats; Region: SEL1; smart00671 688245003597 chaperone protein DnaJ; Provisional; Region: PRK10767 688245003598 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 688245003599 HSP70 interaction site [polypeptide binding]; other site 688245003600 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 688245003601 substrate binding site [polypeptide binding]; other site 688245003602 dimer interface [polypeptide binding]; other site 688245003603 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 688245003604 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 688245003605 nucleotide binding site [chemical binding]; other site 688245003606 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 688245003607 dimer interface [polypeptide binding]; other site 688245003608 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 688245003609 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 688245003610 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 688245003611 generic binding surface II; other site 688245003612 generic binding surface I; other site 688245003613 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 688245003614 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 688245003615 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 688245003616 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 688245003617 replicative DNA helicase; Region: DnaB; TIGR00665 688245003618 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 688245003619 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 688245003620 Walker A motif; other site 688245003621 ATP binding site [chemical binding]; other site 688245003622 Walker B motif; other site 688245003623 DNA binding loops [nucleotide binding] 688245003624 major vault protein; Provisional; Region: PTZ00491 688245003625 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 688245003626 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 688245003627 putative active site [active] 688245003628 PhoH-like protein; Region: PhoH; cl17668 688245003629 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 688245003630 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 688245003631 catalytic triad [active] 688245003632 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 688245003633 aminotransferase AlaT; Validated; Region: PRK09265 688245003634 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 688245003635 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245003636 homodimer interface [polypeptide binding]; other site 688245003637 catalytic residue [active] 688245003638 homoserine dehydrogenase; Provisional; Region: PRK06349 688245003639 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 688245003640 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 688245003641 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 688245003642 threonine synthase; Validated; Region: PRK09225 688245003643 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 688245003644 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245003645 catalytic residue [active] 688245003646 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 688245003647 Walker A motif; other site 688245003648 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 688245003649 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 688245003650 dimer interface [polypeptide binding]; other site 688245003651 putative functional site; other site 688245003652 putative MPT binding site; other site 688245003653 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 688245003654 MoaE interaction surface [polypeptide binding]; other site 688245003655 MoeB interaction surface [polypeptide binding]; other site 688245003656 thiocarboxylated glycine; other site 688245003657 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 688245003658 Recombinase; Region: Recombinase; pfam07508 688245003659 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 688245003660 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245003661 putative substrate translocation pore; other site 688245003662 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 688245003663 Bacterial regulatory proteins, tetR family; Region: TetR_N; cl19382 688245003664 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 688245003665 GIY-YIG motif/motif A; other site 688245003666 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 688245003667 MoaE homodimer interface [polypeptide binding]; other site 688245003668 MoaD interaction [polypeptide binding]; other site 688245003669 active site residues [active] 688245003670 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 688245003671 EamA-like transporter family; Region: EamA; pfam00892 688245003672 EamA-like transporter family; Region: EamA; pfam00892 688245003673 Helix-turn-helix domain; Region: HTH_18; pfam12833 688245003674 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 688245003675 Clp amino terminal domain; Region: Clp_N; pfam02861 688245003676 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 688245003677 Walker A motif; other site 688245003678 ATP binding site [chemical binding]; other site 688245003679 Walker B motif; other site 688245003680 arginine finger; other site 688245003681 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 688245003682 Walker A motif; other site 688245003683 ATP binding site [chemical binding]; other site 688245003684 Walker B motif; other site 688245003685 arginine finger; other site 688245003686 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 688245003687 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 688245003688 NAD(P) binding site [chemical binding]; other site 688245003689 catalytic residues [active] 688245003690 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245003691 Coenzyme A binding pocket [chemical binding]; other site 688245003692 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 688245003693 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 688245003694 S-adenosylmethionine binding site [chemical binding]; other site 688245003695 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 688245003696 FMN binding site [chemical binding]; other site 688245003697 active site 688245003698 catalytic residues [active] 688245003699 substrate binding site [chemical binding]; other site 688245003700 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 688245003701 PLD-like domain; Region: PLDc_2; pfam13091 688245003702 putative active site [active] 688245003703 catalytic site [active] 688245003704 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 688245003705 PLD-like domain; Region: PLDc_2; pfam13091 688245003706 putative active site [active] 688245003707 catalytic site [active] 688245003708 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 688245003709 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 688245003710 catalytic motif [active] 688245003711 Zn binding site [ion binding]; other site 688245003712 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 688245003713 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 688245003714 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 688245003715 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 688245003716 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 688245003717 PilX N-terminal; Region: PilX_N; pfam14341 688245003718 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 688245003719 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 688245003720 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 688245003721 Type II transport protein GspH; Region: GspH; pfam12019 688245003722 Type II transport protein GspH; Region: GspH; pfam12019 688245003723 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 688245003724 16S/18S rRNA binding site [nucleotide binding]; other site 688245003725 S13e-L30e interaction site [polypeptide binding]; other site 688245003726 25S rRNA binding site [nucleotide binding]; other site 688245003727 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 688245003728 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 688245003729 RNase E interface [polypeptide binding]; other site 688245003730 trimer interface [polypeptide binding]; other site 688245003731 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 688245003732 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 688245003733 RNase E interface [polypeptide binding]; other site 688245003734 trimer interface [polypeptide binding]; other site 688245003735 active site 688245003736 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 688245003737 putative nucleic acid binding region [nucleotide binding]; other site 688245003738 G-X-X-G motif; other site 688245003739 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 688245003740 RNA binding site [nucleotide binding]; other site 688245003741 domain interface; other site 688245003742 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 688245003743 NAD(P) binding site [chemical binding]; other site 688245003744 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 688245003745 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 688245003746 substrate binding site [chemical binding]; other site 688245003747 dimer interface [polypeptide binding]; other site 688245003748 catalytic triad [active] 688245003749 protein translocase, SecG subunit; Region: secG; TIGR00810 688245003750 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 688245003751 NADH dehydrogenase subunit B; Validated; Region: PRK06411 688245003752 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 688245003753 NADH dehydrogenase subunit D; Validated; Region: PRK06075 688245003754 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 688245003755 NADH dehydrogenase subunit E; Validated; Region: PRK07539 688245003756 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 688245003757 putative dimer interface [polypeptide binding]; other site 688245003758 [2Fe-2S] cluster binding site [ion binding]; other site 688245003759 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 688245003760 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 688245003761 SLBB domain; Region: SLBB; pfam10531 688245003762 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 688245003763 NADH dehydrogenase subunit G; Validated; Region: PRK09129 688245003764 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 688245003765 catalytic loop [active] 688245003766 iron binding site [ion binding]; other site 688245003767 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 688245003768 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 688245003769 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 688245003770 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 688245003771 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 688245003772 4Fe-4S binding domain; Region: Fer4; pfam00037 688245003773 4Fe-4S binding domain; Region: Fer4; pfam00037 688245003774 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 688245003775 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 688245003776 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 688245003777 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 688245003778 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 688245003779 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 688245003780 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 688245003781 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 688245003782 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 688245003783 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 688245003784 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 688245003785 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 688245003786 RNA polymerase sigma factor; Provisional; Region: PRK12511 688245003787 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 688245003788 DNA binding residues [nucleotide binding] 688245003789 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 688245003790 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 688245003791 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 688245003792 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 688245003793 Walker A/P-loop; other site 688245003794 ATP binding site [chemical binding]; other site 688245003795 Q-loop/lid; other site 688245003796 ABC transporter signature motif; other site 688245003797 Walker B; other site 688245003798 D-loop; other site 688245003799 H-loop/switch region; other site 688245003800 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 688245003801 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 688245003802 Walker A/P-loop; other site 688245003803 ATP binding site [chemical binding]; other site 688245003804 Q-loop/lid; other site 688245003805 ABC transporter signature motif; other site 688245003806 Walker B; other site 688245003807 D-loop; other site 688245003808 H-loop/switch region; other site 688245003809 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 688245003810 putative ligand binding site [chemical binding]; other site 688245003811 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 688245003812 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 688245003813 TM-ABC transporter signature motif; other site 688245003814 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 688245003815 TM-ABC transporter signature motif; other site 688245003816 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 688245003817 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 688245003818 Trp docking motif [polypeptide binding]; other site 688245003819 putative active site [active] 688245003820 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 688245003821 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 688245003822 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 688245003823 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 688245003824 dimer interface [polypeptide binding]; other site 688245003825 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 688245003826 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 688245003827 FtsX-like permease family; Region: FtsX; pfam02687 688245003828 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 688245003829 FtsX-like permease family; Region: FtsX; pfam02687 688245003830 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 688245003831 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 688245003832 Walker A/P-loop; other site 688245003833 ATP binding site [chemical binding]; other site 688245003834 Q-loop/lid; other site 688245003835 ABC transporter signature motif; other site 688245003836 Walker B; other site 688245003837 D-loop; other site 688245003838 H-loop/switch region; other site 688245003839 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 688245003840 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 688245003841 Sulfatase; Region: Sulfatase; pfam00884 688245003842 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245003843 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 688245003844 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 688245003845 putative substrate translocation pore; other site 688245003846 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245003847 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 688245003848 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 688245003849 MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate...; Region: MGS-like; cl00245 688245003850 substrate binding site [chemical binding]; other site 688245003851 hypothetical protein; Provisional; Region: PRK10318 688245003852 Cupin domain; Region: Cupin_2; pfam07883 688245003853 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245003854 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 688245003855 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 688245003856 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 688245003857 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 688245003858 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 688245003859 motif II; other site 688245003860 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 688245003861 glutamate dehydrogenase; Provisional; Region: PRK09414 688245003862 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 688245003863 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 688245003864 NAD(P) binding site [chemical binding]; other site 688245003865 benzoate transport; Region: 2A0115; TIGR00895 688245003866 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 688245003867 putative substrate translocation pore; other site 688245003868 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 688245003869 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 688245003870 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 688245003871 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 688245003872 putative active site [active] 688245003873 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 688245003874 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 688245003875 ATP binding site [chemical binding]; other site 688245003876 Mg2+ binding site [ion binding]; other site 688245003877 G-X-G motif; other site 688245003878 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 688245003879 ATP binding site [chemical binding]; other site 688245003880 MutL C terminal dimerization domain; Region: MutL_C; pfam08676 688245003881 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 688245003882 AMIN domain; Region: AMIN; pfam11741 688245003883 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 688245003884 active site 688245003885 metal binding site [ion binding]; metal-binding site 688245003886 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 688245003887 epoxyqueuosine reductase; Region: TIGR00276 688245003888 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 688245003889 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 688245003890 Predicted permeases [General function prediction only]; Region: COG0679 688245003891 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245003892 Domain of unknown function (DUF4287); Region: DUF4287; pfam14117 688245003893 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 688245003894 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 688245003895 active site 688245003896 Int/Topo IB signature motif; other site 688245003897 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 688245003898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245003899 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 688245003900 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; cl00290 688245003901 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 688245003902 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 688245003903 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; cl00290 688245003904 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 688245003905 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 688245003906 dinuclear metal binding motif [ion binding]; other site 688245003907 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 688245003908 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 688245003909 trimer interface [polypeptide binding]; other site 688245003910 putative metal binding site [ion binding]; other site 688245003911 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 688245003912 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 688245003913 dimerization interface [polypeptide binding]; other site 688245003914 domain crossover interface; other site 688245003915 redox-dependent activation switch; other site 688245003916 Septum formation initiator; Region: DivIC; cl17659 688245003917 enolase; Provisional; Region: eno; PRK00077 688245003918 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 688245003919 dimer interface [polypeptide binding]; other site 688245003920 metal binding site [ion binding]; metal-binding site 688245003921 substrate binding pocket [chemical binding]; other site 688245003922 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 688245003923 CTP synthetase; Validated; Region: pyrG; PRK05380 688245003924 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 688245003925 active site 688245003926 UTP binding site [chemical binding]; other site 688245003927 Catalytic site [active] 688245003928 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 688245003929 active site 688245003930 putative oxyanion hole; other site 688245003931 catalytic triad [active] 688245003932 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 688245003933 Flavoprotein; Region: Flavoprotein; cl19190 688245003934 DNA / pantothenate metabolizm flavoprotein; Region: DFP; pfam04127 688245003935 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 688245003936 trimer interface [polypeptide binding]; other site 688245003937 active site 688245003938 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 688245003939 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 688245003940 ATP binding site [chemical binding]; other site 688245003941 Mg2+ binding site [ion binding]; other site 688245003942 G-X-G motif; other site 688245003943 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 688245003944 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 688245003945 active site 688245003946 phosphorylation site [posttranslational modification] 688245003947 intermolecular recognition site; other site 688245003948 dimerization interface [polypeptide binding]; other site 688245003949 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 688245003950 DNA binding site [nucleotide binding] 688245003951 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 688245003952 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 688245003953 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl19519 688245003954 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 688245003955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3416 688245003956 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 688245003957 NAD(P) binding site [chemical binding]; other site 688245003958 catalytic residues [active] 688245003959 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 688245003960 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 688245003961 Walker A/P-loop; other site 688245003962 ATP binding site [chemical binding]; other site 688245003963 Q-loop/lid; other site 688245003964 ABC transporter signature motif; other site 688245003965 Walker B; other site 688245003966 D-loop; other site 688245003967 H-loop/switch region; other site 688245003968 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 688245003969 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 688245003970 Walker A/P-loop; other site 688245003971 ATP binding site [chemical binding]; other site 688245003972 Q-loop/lid; other site 688245003973 ABC transporter signature motif; other site 688245003974 Walker B; other site 688245003975 D-loop; other site 688245003976 H-loop/switch region; other site 688245003977 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 688245003978 TM-ABC transporter signature motif; other site 688245003979 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 688245003980 TM-ABC transporter signature motif; other site 688245003981 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_5; cd06338 688245003982 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 688245003983 putative ligand binding site [chemical binding]; other site 688245003984 AraC-binding-like domain; Region: AraC_binding_2; pfam14525 688245003985 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 688245003986 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245003987 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 688245003988 FAD binding domain; Region: FAD_binding_4; pfam01565 688245003989 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 688245003990 nitrous-oxide reductase, TAT-dependent; Region: nitrous_NosZ_RR; TIGR04244 688245003991 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 688245003992 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 688245003993 NAD(P) binding site [chemical binding]; other site 688245003994 catalytic residues [active] 688245003995 AraC-binding-like domain; Region: AraC_binding_2; pfam14525 688245003996 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 688245003997 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245003998 Uncharacterized conserved protein [Function unknown]; Region: COG2850 688245003999 NlpB/DapX lipoprotein; Region: Lipoprotein_18; cl19507 688245004000 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 688245004001 dimer interface [polypeptide binding]; other site 688245004002 active site 688245004003 catalytic residue [active] 688245004004 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 688245004005 S-adenosylmethionine binding site [chemical binding]; other site 688245004006 short chain dehydrogenase; Provisional; Region: PRK06181 688245004007 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245004008 NAD(P) binding site [chemical binding]; other site 688245004009 active site 688245004010 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 688245004011 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245004012 putative substrate translocation pore; other site 688245004013 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 688245004014 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 688245004015 ATP binding site [chemical binding]; other site 688245004016 Mg2+ binding site [ion binding]; other site 688245004017 G-X-G motif; other site 688245004018 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 688245004019 anchoring element; other site 688245004020 dimer interface [polypeptide binding]; other site 688245004021 ATP binding site [chemical binding]; other site 688245004022 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 688245004023 active site 688245004024 metal binding site [ion binding]; metal-binding site 688245004025 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 688245004026 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 688245004027 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 688245004028 N-acetyl-D-glucosamine binding site [chemical binding]; other site 688245004029 catalytic residue [active] 688245004030 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 688245004031 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 688245004032 CAP-like domain; other site 688245004033 active site 688245004034 primary dimer interface [polypeptide binding]; other site 688245004035 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 688245004036 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245004037 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245004038 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 688245004039 dimerization interface [polypeptide binding]; other site 688245004040 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 688245004041 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 688245004042 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 688245004043 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 688245004044 putative substrate translocation pore; other site 688245004045 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 688245004046 pyridoxal binding site [chemical binding]; other site 688245004047 dimer interface [polypeptide binding]; other site 688245004048 ATP binding site [chemical binding]; other site 688245004049 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 688245004050 homotrimer interaction site [polypeptide binding]; other site 688245004051 putative active site [active] 688245004052 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 688245004053 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 688245004054 Competence protein; Region: Competence; pfam03772 688245004055 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 688245004056 Uncharacterized conserved protein [Function unknown]; Region: COG2308 688245004057 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 688245004058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 688245004059 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 688245004060 Ferritin-like domain; Region: Ferritin; pfam00210 688245004061 heme binding site [chemical binding]; other site 688245004062 ferroxidase pore; other site 688245004063 ferroxidase diiron center [ion binding]; other site 688245004064 peroxiredoxin; Region: AhpC; TIGR03137 688245004065 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 688245004066 dimer interface [polypeptide binding]; other site 688245004067 decamer (pentamer of dimers) interface [polypeptide binding]; other site 688245004068 catalytic triad [active] 688245004069 peroxidatic and resolving cysteines [active] 688245004070 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 688245004071 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 688245004072 catalytic residue [active] 688245004073 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 688245004074 catalytic residues [active] 688245004075 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 688245004076 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 688245004077 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 688245004078 N-terminal plug; other site 688245004079 Ribonucleotide reductase, alpha subunit [Nucleotide transport and metabolism]; Region: NrdA; COG0209 688245004080 Putative heme degradation protein [Inorganic ion transport and metabolism]; Region: HemS; COG3720 688245004081 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 688245004082 Haemin-degrading HemS.ChuX domain; Region: HemS; pfam05171 688245004083 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 688245004084 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 688245004085 intersubunit interface [polypeptide binding]; other site 688245004086 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 688245004087 ABC-ATPase subunit interface; other site 688245004088 dimer interface [polypeptide binding]; other site 688245004089 putative PBP binding regions; other site 688245004090 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 688245004091 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 688245004092 Walker A/P-loop; other site 688245004093 ATP binding site [chemical binding]; other site 688245004094 Q-loop/lid; other site 688245004095 ABC transporter signature motif; other site 688245004096 Walker B; other site 688245004097 D-loop; other site 688245004098 H-loop/switch region; other site 688245004099 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 688245004100 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245004101 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245004102 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 688245004103 putative effector binding pocket; other site 688245004104 dimerization interface [polypeptide binding]; other site 688245004105 PEP synthetase regulatory protein; Provisional; Region: PRK05339 688245004106 phosphoenolpyruvate synthase; Validated; Region: PRK06464 688245004107 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 688245004108 PEP-utilizing enzyme, mobile domain; Region: PEP-utilizers; pfam00391 688245004109 PEP-utilizing enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 688245004110 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 688245004111 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 688245004112 Na binding site [ion binding]; other site 688245004113 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 688245004114 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 688245004115 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; cl17220 688245004116 dimerization interface [polypeptide binding]; other site 688245004117 putative DNA binding site [nucleotide binding]; other site 688245004118 Predicted transcriptional regulators [Transcription]; Region: COG1733 688245004119 putative Zn2+ binding site [ion binding]; other site 688245004120 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 688245004121 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 688245004122 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 688245004123 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245004124 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 688245004125 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 688245004126 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 688245004127 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 688245004128 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 688245004129 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 688245004130 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 688245004131 DNA binding residues [nucleotide binding] 688245004132 DNA primase; Validated; Region: dnaG; PRK05667 688245004133 CHC2 zinc finger; Region: zf-CHC2; pfam01807 688245004134 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 688245004135 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 688245004136 active site 688245004137 metal binding site [ion binding]; metal-binding site 688245004138 interdomain interaction site; other site 688245004139 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 688245004140 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 688245004141 acyl-CoA synthetase; Validated; Region: PRK08162 688245004142 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 688245004143 acyl-activating enzyme (AAE) consensus motif; other site 688245004144 putative active site [active] 688245004145 AMP binding site [chemical binding]; other site 688245004146 putative CoA binding site [chemical binding]; other site 688245004147 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 688245004148 putative active site [active] 688245004149 putative metal binding site [ion binding]; other site 688245004150 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; cl00197 688245004151 active site 688245004152 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 688245004153 substrate binding site [chemical binding]; other site 688245004154 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 688245004155 TPR motif; other site 688245004156 Tetratricopeptide repeat; Region: TPR_16; pfam13432 688245004157 binding surface 688245004158 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 688245004159 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 688245004160 active site 688245004161 HIGH motif; other site 688245004162 KMSKS motif; other site 688245004163 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 688245004164 tRNA binding surface [nucleotide binding]; other site 688245004165 anticodon binding site; other site 688245004166 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 688245004167 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 688245004168 minor groove reading motif; other site 688245004169 helix-hairpin-helix signature motif; other site 688245004170 substrate binding pocket [chemical binding]; other site 688245004171 active site 688245004172 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 688245004173 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 688245004174 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 688245004175 Ligand Binding Site [chemical binding]; other site 688245004176 TilS substrate binding domain; Region: TilS; pfam09179 688245004177 aspartate kinase; Reviewed; Region: PRK06635 688245004178 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 688245004179 putative nucleotide binding site [chemical binding]; other site 688245004180 putative catalytic residues [active] 688245004181 putative Mg ion binding site [ion binding]; other site 688245004182 putative aspartate binding site [chemical binding]; other site 688245004183 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 688245004184 putative allosteric regulatory site; other site 688245004185 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 688245004186 putative allosteric regulatory residue; other site 688245004187 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 688245004188 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 688245004189 active site 688245004190 uracil binding [chemical binding]; other site 688245004191 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 688245004192 active site 688245004193 substrate binding site [chemical binding]; other site 688245004194 Mg2+ binding site [ion binding]; other site 688245004195 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 688245004196 RNA binding surface [nucleotide binding]; other site 688245004197 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 688245004198 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 688245004199 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 688245004200 dimer interface [polypeptide binding]; other site 688245004201 phosphorylation site [posttranslational modification] 688245004202 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 688245004203 ATP binding site [chemical binding]; other site 688245004204 Mg2+ binding site [ion binding]; other site 688245004205 G-X-G motif; other site 688245004206 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 688245004207 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 688245004208 active site 688245004209 phosphorylation site [posttranslational modification] 688245004210 intermolecular recognition site; other site 688245004211 dimerization interface [polypeptide binding]; other site 688245004212 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; cl17355 688245004213 DNA binding site [nucleotide binding] 688245004214 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245004215 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 688245004216 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 688245004217 PAS fold; Region: PAS_4; pfam08448 688245004218 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 688245004219 putative active site [active] 688245004220 heme pocket [chemical binding]; other site 688245004221 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 688245004222 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 688245004223 Walker A motif; other site 688245004224 ATP binding site [chemical binding]; other site 688245004225 Walker B motif; other site 688245004226 arginine finger; other site 688245004227 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 688245004228 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 688245004229 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 688245004230 acyl-activating enzyme (AAE) consensus motif; other site 688245004231 putative AMP binding site [chemical binding]; other site 688245004232 putative active site [active] 688245004233 putative CoA binding site [chemical binding]; other site 688245004234 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; cd01292 688245004235 active site 688245004236 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 688245004237 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 688245004238 putative ligand binding site [chemical binding]; other site 688245004239 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 688245004240 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 688245004241 Walker A/P-loop; other site 688245004242 ATP binding site [chemical binding]; other site 688245004243 Q-loop/lid; other site 688245004244 ABC transporter signature motif; other site 688245004245 Walker B; other site 688245004246 D-loop; other site 688245004247 H-loop/switch region; other site 688245004248 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 688245004249 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 688245004250 Walker A/P-loop; other site 688245004251 ATP binding site [chemical binding]; other site 688245004252 Q-loop/lid; other site 688245004253 ABC transporter signature motif; other site 688245004254 Walker B; other site 688245004255 D-loop; other site 688245004256 H-loop/switch region; other site 688245004257 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 688245004258 TM-ABC transporter signature motif; other site 688245004259 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 688245004260 TM-ABC transporter signature motif; other site 688245004261 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 688245004262 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245004263 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 688245004264 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 688245004265 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 688245004266 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 688245004267 active site residue [active] 688245004268 Sulphur transport; Region: Sulf_transp; cl19477 688245004269 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 688245004270 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 688245004271 active site residue [active] 688245004272 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 688245004273 active site residue [active] 688245004274 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 688245004275 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 688245004276 catalytic loop [active] 688245004277 iron binding site [ion binding]; other site 688245004278 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 688245004279 xanthine dehydrogenase D subunit; Region: pucD; TIGR03196 688245004280 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 688245004281 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 688245004282 FAD binding domain; Region: FAD_binding_4; cl19922 688245004283 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 688245004284 nucleoside/Zn binding site; other site 688245004285 dimer interface [polypeptide binding]; other site 688245004286 catalytic motif [active] 688245004287 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 688245004288 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 688245004289 dimer interface [polypeptide binding]; other site 688245004290 conserved gate region; other site 688245004291 putative PBP binding loops; other site 688245004292 ABC-ATPase subunit interface; other site 688245004293 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 688245004294 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 688245004295 Walker A/P-loop; other site 688245004296 ATP binding site [chemical binding]; other site 688245004297 Q-loop/lid; other site 688245004298 ABC transporter signature motif; other site 688245004299 Walker B; other site 688245004300 D-loop; other site 688245004301 H-loop/switch region; other site 688245004302 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 688245004303 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 688245004304 substrate binding pocket [chemical binding]; other site 688245004305 membrane-bound complex binding site; other site 688245004306 hinge residues; other site 688245004307 Probable pheophorbidase; Region: PLN02965; cl17657 688245004308 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 688245004309 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 688245004310 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 688245004311 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 688245004312 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245004313 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245004314 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 688245004315 dimerization interface [polypeptide binding]; other site 688245004316 ferrochelatase; Reviewed; Region: hemH; PRK00035 688245004317 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 688245004318 C-terminal domain interface [polypeptide binding]; other site 688245004319 active site 688245004320 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 688245004321 active site 688245004322 N-terminal domain interface [polypeptide binding]; other site 688245004323 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 688245004324 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 688245004325 motif II; other site 688245004326 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 688245004327 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 688245004328 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245004329 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 688245004330 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 688245004331 active site lid residues [active] 688245004332 substrate binding pocket [chemical binding]; other site 688245004333 catalytic residues [active] 688245004334 substrate-Mg2+ binding site; other site 688245004335 aspartate-rich region 1; other site 688245004336 aspartate-rich region 2; other site 688245004337 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 688245004338 active site lid residues [active] 688245004339 substrate binding pocket [chemical binding]; other site 688245004340 catalytic residues [active] 688245004341 substrate-Mg2+ binding site; other site 688245004342 aspartate-rich region 1; other site 688245004343 aspartate-rich region 2; other site 688245004344 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 688245004345 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 688245004346 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245004347 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 688245004348 trigger factor; Provisional; Region: tig; PRK01490 688245004349 Bacterial trigger factor protein (TF); Region: Trigger_N; pfam05697 688245004350 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 688245004351 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 688245004352 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 688245004353 oligomer interface [polypeptide binding]; other site 688245004354 active site residues [active] 688245004355 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 688245004356 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 688245004357 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 688245004358 Walker A motif; other site 688245004359 ATP binding site [chemical binding]; other site 688245004360 Walker B motif; other site 688245004361 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 688245004362 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 688245004363 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 688245004364 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 688245004365 Walker A motif; other site 688245004366 ATP binding site [chemical binding]; other site 688245004367 Walker B motif; other site 688245004368 arginine finger; other site 688245004369 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 688245004370 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 688245004371 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 688245004372 THF binding site; other site 688245004373 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 688245004374 substrate binding site [chemical binding]; other site 688245004375 THF binding site; other site 688245004376 zinc-binding site [ion binding]; other site 688245004377 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245004378 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245004379 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 688245004380 putative dimerization interface [polypeptide binding]; other site 688245004381 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245004382 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 688245004383 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 688245004384 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 688245004385 Putative amidotransferase; Region: DUF4066; pfam13278 688245004386 conserved cys residue [active] 688245004387 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 688245004388 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245004389 DNA-binding site [nucleotide binding]; DNA binding site 688245004390 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 688245004391 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245004392 homodimer interface [polypeptide binding]; other site 688245004393 catalytic residue [active] 688245004394 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 688245004395 tetramer interface [polypeptide binding]; other site 688245004396 active site 688245004397 Mg2+/Mn2+ binding site [ion binding]; other site 688245004398 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245004399 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245004400 Propionate catabolism activator; Region: PrpR_N; pfam06506 688245004401 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 688245004402 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 688245004403 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 688245004404 Walker A motif; other site 688245004405 ATP binding site [chemical binding]; other site 688245004406 Walker B motif; other site 688245004407 arginine finger; other site 688245004408 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 688245004409 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 688245004410 PAS fold; Region: PAS_3; pfam08447 688245004411 putative active site [active] 688245004412 heme pocket [chemical binding]; other site 688245004413 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245004414 metal binding site [ion binding]; metal-binding site 688245004415 active site 688245004416 I-site; other site 688245004417 PrpF protein; Region: PrpF; cl19418 688245004418 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 688245004419 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 688245004420 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 688245004421 substrate binding site [chemical binding]; other site 688245004422 ligand binding site [chemical binding]; other site 688245004423 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 688245004424 substrate binding site [chemical binding]; other site 688245004425 Transcriptional regulators [Transcription]; Region: GntR; COG1802 688245004426 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245004427 DNA-binding site [nucleotide binding]; DNA binding site 688245004428 methylcitrate synthase; Provisional; Region: PRK12351 688245004429 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 688245004430 oxalacetate binding site [chemical binding]; other site 688245004431 citrylCoA binding site [chemical binding]; other site 688245004432 coenzyme A binding site [chemical binding]; other site 688245004433 catalytic triad [active] 688245004434 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 688245004435 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 688245004436 non-specific DNA binding site [nucleotide binding]; other site 688245004437 salt bridge; other site 688245004438 sequence-specific DNA binding site [nucleotide binding]; other site 688245004439 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 688245004440 Domain of unknown function (DUF955); Region: DUF955; pfam06114 688245004441 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 688245004442 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 688245004443 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245004444 NAD(P) binding site [chemical binding]; other site 688245004445 active site 688245004446 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 688245004447 classical (c) SDRs; Region: SDR_c; cd05233 688245004448 NAD(P) binding site [chemical binding]; other site 688245004449 active site 688245004450 SnoaL-like domain; Region: SnoaL_4; pfam13577 688245004451 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 688245004452 FMN binding site [chemical binding]; other site 688245004453 active site 688245004454 substrate binding site [chemical binding]; other site 688245004455 catalytic residue [active] 688245004456 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 688245004457 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 688245004458 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 688245004459 active site 688245004460 Fe binding site [ion binding]; other site 688245004461 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 688245004462 Coenzyme A transferase; Region: CoA_trans; cl17247 688245004463 enoyl-CoA hydratase; Provisional; Region: PRK08290 688245004464 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 688245004465 substrate binding site [chemical binding]; other site 688245004466 oxyanion hole (OAH) forming residues; other site 688245004467 trimer interface [polypeptide binding]; other site 688245004468 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 688245004469 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 688245004470 FMN binding site [chemical binding]; other site 688245004471 enoyl-CoA hydratase; Provisional; Region: PRK07938 688245004472 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 688245004473 substrate binding site [chemical binding]; other site 688245004474 oxyanion hole (OAH) forming residues; other site 688245004475 trimer interface [polypeptide binding]; other site 688245004476 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 688245004477 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245004478 active site 688245004479 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245004480 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245004481 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 688245004482 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 688245004483 dimer interface [polypeptide binding]; other site 688245004484 active site 688245004485 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 688245004486 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 688245004487 short chain dehydrogenase; Provisional; Region: PRK07791 688245004488 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 688245004489 homodimer interface [polypeptide binding]; other site 688245004490 NAD binding site [chemical binding]; other site 688245004491 active site 688245004492 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245004493 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 688245004494 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 688245004495 active site 688245004496 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245004497 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245004498 active site 688245004499 short chain dehydrogenase; Provisional; Region: PRK07831 688245004500 classical (c) SDRs; Region: SDR_c; cd05233 688245004501 NAD(P) binding site [chemical binding]; other site 688245004502 active site 688245004503 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 688245004504 putative active site [active] 688245004505 putative catalytic site [active] 688245004506 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 688245004507 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 688245004508 dimer interface [polypeptide binding]; other site 688245004509 active site 688245004510 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 688245004511 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 688245004512 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 688245004513 DNA binding residues [nucleotide binding] 688245004514 dimerization interface [polypeptide binding]; other site 688245004515 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245004516 metal binding site [ion binding]; metal-binding site 688245004517 active site 688245004518 I-site; other site 688245004519 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 688245004520 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 688245004521 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245004522 NAD(P) binding site [chemical binding]; other site 688245004523 active site 688245004524 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 688245004525 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 688245004526 dimer interface [polypeptide binding]; other site 688245004527 active site 688245004528 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 688245004529 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 688245004530 substrate binding site [chemical binding]; other site 688245004531 oxyanion hole (OAH) forming residues; other site 688245004532 trimer interface [polypeptide binding]; other site 688245004533 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 688245004534 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 688245004535 choline dehydrogenase; Validated; Region: PRK02106 688245004536 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245004537 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 688245004538 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245004539 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245004540 active site 688245004541 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 688245004542 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245004543 active site 688245004544 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 688245004545 putative substrate translocation pore; other site 688245004546 D-galactonate transporter; Region: 2A0114; TIGR00893 688245004547 acyl-CoA synthetase; Validated; Region: PRK07798 688245004548 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 688245004549 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 688245004550 acyl-activating enzyme (AAE) consensus motif; other site 688245004551 acyl-activating enzyme (AAE) consensus motif; other site 688245004552 AMP binding site [chemical binding]; other site 688245004553 active site 688245004554 CoA binding site [chemical binding]; other site 688245004555 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 688245004556 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 688245004557 active site 688245004558 putative substrate binding pocket [chemical binding]; other site 688245004559 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 688245004560 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245004561 putative substrate translocation pore; other site 688245004562 EthD domain; Region: EthD; pfam07110 688245004563 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 688245004564 [2Fe-2S] cluster binding site [ion binding]; other site 688245004565 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 688245004566 classical (c) SDRs; Region: SDR_c; cd05233 688245004567 NAD(P) binding site [chemical binding]; other site 688245004568 active site 688245004569 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 688245004570 D-galactonate transporter; Region: 2A0114; TIGR00893 688245004571 putative substrate translocation pore; other site 688245004572 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 688245004573 NAD(P) binding site [chemical binding]; other site 688245004574 catalytic residues [active] 688245004575 short chain dehydrogenase; Provisional; Region: PRK07814 688245004576 classical (c) SDRs; Region: SDR_c; cd05233 688245004577 NAD(P) binding site [chemical binding]; other site 688245004578 active site 688245004579 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245004580 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245004581 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 688245004582 putative effector binding pocket; other site 688245004583 dimerization interface [polypeptide binding]; other site 688245004584 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 688245004585 catalytic residues [active] 688245004586 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 688245004587 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 688245004588 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 688245004589 putative acetyltransferase; Provisional; Region: PRK03624 688245004590 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245004591 Coenzyme A binding pocket [chemical binding]; other site 688245004592 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 688245004593 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 688245004594 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 688245004595 active site 688245004596 FMN binding site [chemical binding]; other site 688245004597 substrate binding site [chemical binding]; other site 688245004598 putative catalytic residue [active] 688245004599 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 688245004600 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 688245004601 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 688245004602 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 688245004603 active site 688245004604 FMN binding site [chemical binding]; other site 688245004605 2,4-decadienoyl-CoA binding site; other site 688245004606 catalytic residue [active] 688245004607 4Fe-4S cluster binding site [ion binding]; other site 688245004608 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245004609 alpha hydroxysteroid dehydrogenase (3alpha_HSD), classical (c) SDRs; Region: 3alpha_HSD_SDR_c; cd05328 688245004610 tropinone reductase; Provisional; Region: PRK09242 688245004611 NAD binding site [chemical binding]; other site 688245004612 active site 688245004613 homodimer interface [polypeptide binding]; other site 688245004614 ketosteroid isomerase: Many biological reactions proceed by enzymatic cleavage of a C-H bond adjacent to carbonyl or a carboxyl group, leading to an enol or a enolate intermediate that is subsequently re-protonated at the same or an adjacent carbon; Region: ketosteroid_isomerase; cd00781 688245004615 dimer interface [polypeptide binding]; other site 688245004616 active site/substrate binding site [active] 688245004617 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 688245004618 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 688245004619 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 688245004620 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 688245004621 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 688245004622 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245004623 Coenzyme A binding pocket [chemical binding]; other site 688245004624 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245004625 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245004626 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 688245004627 putative effector binding pocket; other site 688245004628 putative dimerization interface [polypeptide binding]; other site 688245004629 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 688245004630 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245004631 NAD(P) binding site [chemical binding]; other site 688245004632 active site 688245004633 Uncharacterized conserved protein [Function unknown]; Region: COG3791 688245004634 enoyl-CoA hydratase; Provisional; Region: PRK08138 688245004635 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 688245004636 substrate binding site [chemical binding]; other site 688245004637 oxyanion hole (OAH) forming residues; other site 688245004638 trimer interface [polypeptide binding]; other site 688245004639 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 688245004640 classical (c) SDRs; Region: SDR_c; cd05233 688245004641 NAD(P) binding site [chemical binding]; other site 688245004642 active site 688245004643 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 688245004644 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 688245004645 DUF35 OB-fold domain; Region: DUF35; pfam01796 688245004646 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245004647 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 688245004648 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245004649 SAV4209 is a Streptomyces avermitilis protein with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. The alpha- and...; Region: SAV4209; cd03455 688245004650 putative active site [active] 688245004651 putative catalytic site [active] 688245004652 lipid-transfer protein; Provisional; Region: PRK07855 688245004653 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 688245004654 active site 688245004655 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245004656 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245004657 active site 688245004658 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 688245004659 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 688245004660 acyl-activating enzyme (AAE) consensus motif; other site 688245004661 putative AMP binding site [chemical binding]; other site 688245004662 putative active site [active] 688245004663 putative CoA binding site [chemical binding]; other site 688245004664 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 688245004665 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245004666 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 688245004667 active site 688245004668 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 688245004669 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 688245004670 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 688245004671 active site 688245004672 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 688245004673 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 688245004674 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 688245004675 acyl-activating enzyme (AAE) consensus motif; other site 688245004676 acyl-activating enzyme (AAE) consensus motif; other site 688245004677 putative AMP binding site [chemical binding]; other site 688245004678 putative active site [active] 688245004679 putative CoA binding site [chemical binding]; other site 688245004680 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 688245004681 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 688245004682 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 688245004683 SnoaL-like domain; Region: SnoaL_4; pfam13577 688245004684 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 688245004685 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 688245004686 MMPL family; Region: MMPL; cl14618 688245004687 Photosynthesis system II assembly factor YCF48; Region: PSII_BNR; pfam14870 688245004688 thiolase; Provisional; Region: PRK06158 688245004689 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 688245004690 active site 688245004691 DUF35 OB-fold domain; Region: DUF35; pfam01796 688245004692 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 688245004693 putative active site [active] 688245004694 putative catalytic site [active] 688245004695 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 688245004696 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 688245004697 N-terminal plug; other site 688245004698 ligand-binding site [chemical binding]; other site 688245004699 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 688245004700 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 688245004701 active site 688245004702 catalytic residues [active] 688245004703 metal binding site [ion binding]; metal-binding site 688245004704 DmpG-like communication domain; Region: DmpG_comm; pfam07836 688245004705 acetaldehyde dehydrogenase; Validated; Region: PRK08300 688245004706 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 688245004707 Prokaryotic acetaldehyde dehydrogenase, dimerization; Region: AcetDehyd-dimer; pfam09290 688245004708 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 688245004709 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 688245004710 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245004711 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 688245004712 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245004713 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; cl17220 688245004714 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245004715 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245004716 active site 688245004717 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK07843 688245004718 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245004719 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245004720 hypothetical protein; Validated; Region: PRK07121 688245004721 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 688245004722 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 688245004723 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 688245004724 FAD binding pocket [chemical binding]; other site 688245004725 FAD binding motif [chemical binding]; other site 688245004726 phosphate binding motif [ion binding]; other site 688245004727 beta-alpha-beta structure motif; other site 688245004728 NAD(p) ribose binding residues [chemical binding]; other site 688245004729 NAD binding pocket [chemical binding]; other site 688245004730 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 688245004731 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 688245004732 catalytic loop [active] 688245004733 iron binding site [ion binding]; other site 688245004734 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 688245004735 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 688245004736 acyl-activating enzyme (AAE) consensus motif; other site 688245004737 putative AMP binding site [chemical binding]; other site 688245004738 putative active site [active] 688245004739 putative CoA binding site [chemical binding]; other site 688245004740 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 688245004741 glutamate racemase; Provisional; Region: PRK00865 688245004742 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 688245004743 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245004744 Coenzyme A binding pocket [chemical binding]; other site 688245004745 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 688245004746 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 688245004747 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 688245004748 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 688245004749 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 688245004750 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 688245004751 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 688245004752 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 688245004753 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 688245004754 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 688245004755 chromosome condensation membrane protein; Provisional; Region: PRK14196 688245004756 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 688245004757 Uncharacterized protein conserved in bacteria (DUF2199); Region: DUF2199; pfam09965 688245004758 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 688245004759 S-adenosylmethionine binding site [chemical binding]; other site 688245004760 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 688245004761 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245004762 Coenzyme A binding pocket [chemical binding]; other site 688245004763 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 688245004764 Fumarase C-terminus; Region: Fumerase_C; pfam05683 688245004765 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 688245004766 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 688245004767 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 688245004768 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245004769 metal binding site [ion binding]; metal-binding site 688245004770 active site 688245004771 I-site; other site 688245004772 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 688245004773 fumarate hydratase; Reviewed; Region: fumC; PRK00485 688245004774 Class II fumarases; Region: Fumarase_classII; cd01362 688245004775 active site 688245004776 tetramer interface [polypeptide binding]; other site 688245004777 Putative ParB-like nuclease; Region: ParBc_2; pfam08857 688245004778 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 688245004779 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 688245004780 Sulfate transporter family; Region: Sulfate_transp; cl19250 688245004781 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 688245004782 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 688245004783 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 688245004784 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 688245004785 putative substrate translocation pore; other site 688245004786 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; cl17220 688245004787 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245004788 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 688245004789 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 688245004790 Trp docking motif [polypeptide binding]; other site 688245004791 cytochrome domain interface [polypeptide binding]; other site 688245004792 active site 688245004793 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 688245004794 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 688245004795 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 688245004796 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 688245004797 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 688245004798 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 688245004799 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 688245004800 dimer interface [polypeptide binding]; other site 688245004801 conserved gate region; other site 688245004802 putative PBP binding loops; other site 688245004803 ABC-ATPase subunit interface; other site 688245004804 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 688245004805 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 688245004806 Walker A/P-loop; other site 688245004807 ATP binding site [chemical binding]; other site 688245004808 Q-loop/lid; other site 688245004809 ABC transporter signature motif; other site 688245004810 Walker B; other site 688245004811 D-loop; other site 688245004812 H-loop/switch region; other site 688245004813 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 688245004814 hypothetical protein; Provisional; Region: PRK05208 688245004815 acetyl-CoA synthetase; Provisional; Region: PRK00174 688245004816 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 688245004817 active site 688245004818 CoA binding site [chemical binding]; other site 688245004819 acyl-activating enzyme (AAE) consensus motif; other site 688245004820 AMP binding site [chemical binding]; other site 688245004821 acetate binding site [chemical binding]; other site 688245004822 argininosuccinate synthase; Validated; Region: PRK05370 688245004823 argininosuccinate synthase; Provisional; Region: PRK13820 688245004824 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 688245004825 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 688245004826 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 688245004827 putative catalytic residues [active] 688245004828 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 688245004829 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 688245004830 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 688245004831 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 688245004832 Sporulation related domain; Region: SPOR; pfam05036 688245004833 Colicin V production protein; Region: Colicin_V; pfam02674 688245004834 amidophosphoribosyltransferase; Provisional; Region: PRK09246 688245004835 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 688245004836 tetramer interface [polypeptide binding]; other site 688245004837 active site 688245004838 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 688245004839 active site 688245004840 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 688245004841 homodimer interface [polypeptide binding]; other site 688245004842 substrate-cofactor binding pocket; other site 688245004843 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245004844 catalytic residue [active] 688245004845 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 688245004846 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 688245004847 active site 688245004848 HIGH motif; other site 688245004849 KMSKS motif; other site 688245004850 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 688245004851 Outer membrane efflux protein; Region: OEP; pfam02321 688245004852 Outer membrane efflux protein; Region: OEP; pfam02321 688245004853 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 688245004854 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 688245004855 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245004856 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 688245004857 MMPL family; Region: MMPL; cl14618 688245004858 Nitrogen regulatory protein P-II; Region: P-II; smart00938 688245004859 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 688245004860 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 688245004861 NAD binding site [chemical binding]; other site 688245004862 homodimer interface [polypeptide binding]; other site 688245004863 homotetramer interface [polypeptide binding]; other site 688245004864 active site 688245004865 Phasin protein; Region: Phasin_2; pfam09361 688245004866 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 688245004867 active site 688245004868 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 688245004869 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 688245004870 active site 688245004871 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 688245004872 transmembrane helices; other site 688245004873 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 688245004874 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 688245004875 dimerization interface [polypeptide binding]; other site 688245004876 ligand binding site [chemical binding]; other site 688245004877 NADP binding site [chemical binding]; other site 688245004878 catalytic site [active] 688245004879 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 688245004880 Tautomerase enzyme; Region: Tautomerase_2; pfam14552 688245004881 active site 1 [active] 688245004882 dimer interface [polypeptide binding]; other site 688245004883 hexamer interface [polypeptide binding]; other site 688245004884 active site 2 [active] 688245004885 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 688245004886 RmuC family; Region: RmuC; pfam02646 688245004887 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 688245004888 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245004889 putative substrate translocation pore; other site 688245004890 tetratricopeptide repeat protein; Provisional; Region: PRK11788 688245004891 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 688245004892 binding surface 688245004893 TPR motif; other site 688245004894 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 688245004895 Beta subunit of integration host factor (IHFB); Region: IHF_B; cd13836 688245004896 dimer interface [polypeptide binding]; other site 688245004897 DNA binding site [nucleotide binding] 688245004898 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 688245004899 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 688245004900 RNA binding site [nucleotide binding]; other site 688245004901 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 688245004902 RNA binding site [nucleotide binding]; other site 688245004903 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 688245004904 RNA binding site [nucleotide binding]; other site 688245004905 S1_RPS1_repeat_ec4: 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_ec4; cd05689 688245004906 RNA binding site [nucleotide binding]; other site 688245004907 S1_RPS1_repeat_ec5: 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_ec5; cd05690 688245004908 RNA binding site [nucleotide binding]; other site 688245004909 S1_RPS1_repeat_ec6: 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_ec6; cd05691 688245004910 RNA binding site [nucleotide binding]; other site 688245004911 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional; Region: PRK11860 688245004912 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 688245004913 hinge; other site 688245004914 active site 688245004915 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 688245004916 CMP-binding site; other site 688245004917 The sites determining sugar specificity; other site 688245004918 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 688245004919 prephenate dehydrogenase; Validated; Region: PRK08507 688245004920 Chorismate mutase type II; Region: CM_2; pfam01817 688245004921 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 688245004922 Prephenate dehydratase; Region: PDT; pfam00800 688245004923 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 688245004924 putative L-Phe binding site [chemical binding]; other site 688245004925 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 688245004926 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 688245004927 catalytic residue [active] 688245004928 DNA gyrase subunit A; Validated; Region: PRK05560 688245004929 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 688245004930 CAP-like domain; other site 688245004931 active site 688245004932 primary dimer interface [polypeptide binding]; other site 688245004933 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 688245004934 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 688245004935 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 688245004936 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 688245004937 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 688245004938 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 688245004939 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 688245004940 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 688245004941 ligand binding site [chemical binding]; other site 688245004942 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 688245004943 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 688245004944 S-adenosylmethionine binding site [chemical binding]; other site 688245004945 phosphoglycolate phosphatase; Provisional; Region: PRK13222 688245004946 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 688245004947 active site 688245004948 motif I; other site 688245004949 motif II; other site 688245004950 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 688245004951 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 688245004952 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 688245004953 active site 688245004954 DNA binding site [nucleotide binding] 688245004955 Int/Topo IB signature motif; other site 688245004956 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245004957 metal binding site [ion binding]; metal-binding site 688245004958 active site 688245004959 I-site; other site 688245004960 recombination associated protein; Reviewed; Region: rdgC; PRK00321 688245004961 Sensors of blue-light using FAD; Region: BLUF; pfam04940 688245004962 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 688245004963 non-specific DNA binding site [nucleotide binding]; other site 688245004964 salt bridge; other site 688245004965 sequence-specific DNA binding site [nucleotide binding]; other site 688245004966 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 688245004967 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 688245004968 non-specific DNA binding site [nucleotide binding]; other site 688245004969 salt bridge; other site 688245004970 sequence-specific DNA binding site [nucleotide binding]; other site 688245004971 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 688245004972 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 688245004973 Gas vesicle protein G; Region: GvpG; pfam05120 688245004974 Bacteriophage head to tail connecting protein; Region: Head-tail_con; cl19541 688245004975 flagellin; Validated; Region: PRK06819 688245004976 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 688245004977 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 688245004978 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 688245004979 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl17818 688245004980 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 688245004981 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 688245004982 active site 688245004983 phosphorylation site [posttranslational modification] 688245004984 intermolecular recognition site; other site 688245004985 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 688245004986 DNA binding residues [nucleotide binding] 688245004987 dimerization interface [polypeptide binding]; other site 688245004988 GcrA cell cycle regulator; Region: GcrA; cl11564 688245004989 integrase; Provisional; Region: PRK09692 688245004990 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 688245004991 active site 688245004992 Int/Topo IB signature motif; other site 688245004993 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 688245004994 FAD binding pocket [chemical binding]; other site 688245004995 phosphate binding motif [ion binding]; other site 688245004996 beta-alpha-beta structure motif; other site 688245004997 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 688245004998 trimer interface [polypeptide binding]; other site 688245004999 eyelet of channel; other site 688245005000 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245005001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245005002 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 688245005003 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 688245005004 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 688245005005 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 688245005006 Integrase core domain; Region: rve; pfam00665 688245005007 Integrase core domain; Region: rve_3; pfam13683 688245005008 Hemerythrin; Region: Hemerythrin; cd12107 688245005009 Fe binding site [ion binding]; other site 688245005010 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 688245005011 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 688245005012 FMN-binding pocket [chemical binding]; other site 688245005013 flavin binding motif; other site 688245005014 phosphate binding motif [ion binding]; other site 688245005015 beta-alpha-beta structure motif; other site 688245005016 NAD binding pocket [chemical binding]; other site 688245005017 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 688245005018 catalytic loop [active] 688245005019 iron binding site [ion binding]; other site 688245005020 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 688245005021 D-galactonate transporter; Region: 2A0114; TIGR00893 688245005022 putative substrate translocation pore; other site 688245005023 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 688245005024 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245005025 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; cl17220 688245005026 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 688245005027 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 688245005028 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 688245005029 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 688245005030 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 688245005031 hydrophobic ligand binding site; other site 688245005032 Helix-turn-helix domain; Region: HTH_28; pfam13518 688245005033 putative transposase OrfB; Reviewed; Region: PHA02517 688245005034 HTH-like domain; Region: HTH_21; pfam13276 688245005035 Integrase core domain; Region: rve; pfam00665 688245005036 Integrase core domain; Region: rve_2; pfam13333 688245005037 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 688245005038 Transposase; Region: DEDD_Tnp_IS110; pfam01548 688245005039 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 688245005040 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 688245005041 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 688245005042 Bacterial transcriptional regulator; Region: IclR; pfam01614 688245005043 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245005044 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 688245005045 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 688245005046 iron-sulfur cluster [ion binding]; other site 688245005047 [2Fe-2S] cluster binding site [ion binding]; other site 688245005048 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 688245005049 putative alpha subunit interface [polypeptide binding]; other site 688245005050 putative active site [active] 688245005051 putative substrate binding site [chemical binding]; other site 688245005052 Fe binding site [ion binding]; other site 688245005053 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; cl09109 688245005054 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 688245005055 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 688245005056 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 688245005057 catalytic loop [active] 688245005058 iron binding site [ion binding]; other site 688245005059 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 688245005060 FAD binding pocket [chemical binding]; other site 688245005061 FAD binding motif [chemical binding]; other site 688245005062 phosphate binding motif [ion binding]; other site 688245005063 beta-alpha-beta structure motif; other site 688245005064 NAD binding pocket [chemical binding]; other site 688245005065 Integrase core domain; Region: rve; pfam00665 688245005066 HTH-like domain; Region: HTH_21; pfam13276 688245005067 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 688245005068 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 688245005069 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 688245005070 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 688245005071 non-specific DNA binding site [nucleotide binding]; other site 688245005072 salt bridge; other site 688245005073 sequence-specific DNA binding site [nucleotide binding]; other site 688245005074 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 688245005075 phage/plasmid-like protein TIGR03299; Region: LGT_TIGR03299 688245005076 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 688245005077 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 688245005078 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 688245005079 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 688245005080 HsdM N-terminal domain; Region: HsdM_N; pfam12161 688245005081 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 688245005082 Methyltransferase domain; Region: Methyltransf_26; pfam13659 688245005083 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 688245005084 response regulator PleD; Reviewed; Region: pleD; PRK09581 688245005085 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 688245005086 active site 688245005087 phosphorylation site [posttranslational modification] 688245005088 intermolecular recognition site; other site 688245005089 dimerization interface [polypeptide binding]; other site 688245005090 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 688245005091 putative active site [active] 688245005092 heme pocket [chemical binding]; other site 688245005093 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245005094 metal binding site [ion binding]; metal-binding site 688245005095 active site 688245005096 I-site; other site 688245005097 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 688245005098 CHASE domain; Region: CHASE; pfam03924 688245005099 PAS domain S-box; Region: sensory_box; TIGR00229 688245005100 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 688245005101 putative active site [active] 688245005102 heme pocket [chemical binding]; other site 688245005103 hypothetical protein; Provisional; Region: PRK13560 688245005104 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 688245005105 putative active site [active] 688245005106 heme pocket [chemical binding]; other site 688245005107 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 688245005108 putative active site [active] 688245005109 heme pocket [chemical binding]; other site 688245005110 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 688245005111 putative active site [active] 688245005112 heme pocket [chemical binding]; other site 688245005113 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 688245005114 putative active site [active] 688245005115 heme pocket [chemical binding]; other site 688245005116 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 688245005117 dimer interface [polypeptide binding]; other site 688245005118 phosphorylation site [posttranslational modification] 688245005119 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 688245005120 ATP binding site [chemical binding]; other site 688245005121 Mg2+ binding site [ion binding]; other site 688245005122 G-X-G motif; other site 688245005123 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 688245005124 active site 688245005125 phosphorylation site [posttranslational modification] 688245005126 intermolecular recognition site; other site 688245005127 dimerization interface [polypeptide binding]; other site 688245005128 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 688245005129 active site 688245005130 phosphorylation site [posttranslational modification] 688245005131 intermolecular recognition site; other site 688245005132 dimerization interface [polypeptide binding]; other site 688245005133 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 688245005134 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 688245005135 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 688245005136 Transposase; Region: DEDD_Tnp_IS110; pfam01548 688245005137 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 688245005138 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 688245005139 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 688245005140 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 688245005141 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 688245005142 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; cl18944 688245005143 CHASE domain; Region: CHASE; pfam03924 688245005144 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 688245005145 putative active site [active] 688245005146 PAS fold; Region: PAS_3; pfam08447 688245005147 heme pocket [chemical binding]; other site 688245005148 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245005149 metal binding site [ion binding]; metal-binding site 688245005150 active site 688245005151 I-site; other site 688245005152 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 688245005153 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 688245005154 HsdM N-terminal domain; Region: HsdM_N; pfam12161 688245005155 Methyltransferase domain; Region: Methyltransf_26; pfam13659 688245005156 Mitochondrial-associated sphingomyelin phosphodiesterase; Region: mit_SMPDase; pfam14724 688245005157 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 688245005158 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 688245005159 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 688245005160 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 688245005161 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 688245005162 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 688245005163 ATP binding site [chemical binding]; other site 688245005164 putative Mg++ binding site [ion binding]; other site 688245005165 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 688245005166 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 688245005167 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 688245005168 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 688245005169 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 688245005170 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 688245005171 active site 688245005172 DNA binding site [nucleotide binding] 688245005173 Int/Topo IB signature motif; other site 688245005174 Methyltransferase domain; Region: Methyltransf_25; pfam13649 688245005175 recombination associated protein; Reviewed; Region: rdgC; PRK00321 688245005176 Sensors of blue-light using FAD; Region: BLUF; pfam04940 688245005177 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 688245005178 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 688245005179 Walker A motif; other site 688245005180 ATP binding site [chemical binding]; other site 688245005181 Walker B motif; other site 688245005182 arginine finger; other site 688245005183 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 688245005184 active site 688245005185 Zn binding site [ion binding]; other site 688245005186 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 688245005187 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 688245005188 ATP binding site [chemical binding]; other site 688245005189 Mg++ binding site [ion binding]; other site 688245005190 motif III; other site 688245005191 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 688245005192 nucleotide binding region [chemical binding]; other site 688245005193 ATP-binding site [chemical binding]; other site 688245005194 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 688245005195 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 688245005196 ABC transporter; Region: ABC_tran_2; pfam12848 688245005197 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 688245005198 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 688245005199 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 688245005200 putative active site pocket [active] 688245005201 cleavage site 688245005202 NLPA lipoprotein; Region: Lipoprotein_9; cl19159 688245005203 NLPA lipoprotein; Region: Lipoprotein_9; cl19159 688245005204 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 688245005205 Leucine rich repeat; Region: LRR_8; pfam13855 688245005206 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 688245005207 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 688245005208 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 688245005209 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 688245005210 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 688245005211 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 688245005212 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 688245005213 Predicted metal-binding protein [General function prediction only]; Region: COG3019 688245005214 Uncharacterized Cupredoxin-like subfamily; Region: Cupredoxin_like_2; cd04211 688245005215 putative Type 1 (T1) Cu binding site [ion binding]; other site 688245005216 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 688245005217 The first cupredoxin domain of bacteria two domain multicopper oxidase; Region: CuRO_1_2dMco_1; cd13860 688245005218 putative trimer interface [polypeptide binding]; other site 688245005219 trinuclear Cu binding site [ion binding]; other site 688245005220 The second cupredoxin domain of bacterial two domain multicopper oxidase McoN and similar proteins; Region: CuRO_D2_2dMcoN_like; cd04202 688245005221 trimer interface [polypeptide binding]; other site 688245005222 trinuclear Cu binding site [ion binding]; other site 688245005223 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 688245005224 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 688245005225 Outer membrane efflux protein; Region: OEP; pfam02321 688245005226 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 688245005227 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 688245005228 Soluble P-type ATPase [General function prediction only]; Region: COG4087 688245005229 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 688245005230 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 688245005231 DNA binding residues [nucleotide binding] 688245005232 dimer interface [polypeptide binding]; other site 688245005233 putative metal binding site [ion binding]; other site 688245005234 Permease; Region: Permease; cl00510 688245005235 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 688245005236 mce related protein; Region: MCE; pfam02470 688245005237 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 688245005238 trimer interface [polypeptide binding]; other site 688245005239 eyelet of channel; other site 688245005240 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 688245005241 ABC-ATPase subunit interface; other site 688245005242 dimer interface [polypeptide binding]; other site 688245005243 putative PBP binding regions; other site 688245005244 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 688245005245 ABC-ATPase subunit interface; other site 688245005246 dimer interface [polypeptide binding]; other site 688245005247 putative PBP binding regions; other site 688245005248 iron-enterobactin transporter periplasmic binding protein; Provisional; Region: PRK10957 688245005249 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 688245005250 intersubunit interface [polypeptide binding]; other site 688245005251 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 688245005252 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 688245005253 Walker A/P-loop; other site 688245005254 ATP binding site [chemical binding]; other site 688245005255 Q-loop/lid; other site 688245005256 ABC transporter signature motif; other site 688245005257 Walker B; other site 688245005258 D-loop; other site 688245005259 H-loop/switch region; other site 688245005260 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 688245005261 Transcriptional regulator [Transcription]; Region: IclR; COG1414 688245005262 Bacterial transcriptional regulator; Region: IclR; pfam01614 688245005263 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 688245005264 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 688245005265 N-terminal plug; other site 688245005266 ligand-binding site [chemical binding]; other site 688245005267 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl19096 688245005268 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 688245005269 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 688245005270 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 688245005271 substrate binding site [chemical binding]; other site 688245005272 oxyanion hole (OAH) forming residues; other site 688245005273 trimer interface [polypeptide binding]; other site 688245005274 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 688245005275 Protein of unknown function DUF72; Region: DUF72; pfam01904 688245005276 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 688245005277 Uncharacterized protein family (UPF0081); Region: UPF0081; cl17278 688245005278 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 688245005279 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 688245005280 RNA binding site [nucleotide binding]; other site 688245005281 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 688245005282 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 688245005283 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 688245005284 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 688245005285 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 688245005286 active site 688245005287 phosphorylation site [posttranslational modification] 688245005288 intermolecular recognition site; other site 688245005289 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 688245005290 DNA binding residues [nucleotide binding] 688245005291 dimerization interface [polypeptide binding]; other site 688245005292 Histidine kinase; Region: HisKA_3; pfam07730 688245005293 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 688245005294 ATP binding site [chemical binding]; other site 688245005295 Mg2+ binding site [ion binding]; other site 688245005296 G-X-G motif; other site 688245005297 Patatin-like phospholipase; Region: Patatin; pfam01734 688245005298 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 688245005299 GAF domain; Region: GAF; pfam01590 688245005300 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 688245005301 putative active site [active] 688245005302 metal binding site [ion binding]; metal-binding site 688245005303 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 688245005304 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 688245005305 trimer interface [polypeptide binding]; other site 688245005306 eyelet of channel; other site 688245005307 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 688245005308 putative hydrophobic ligand binding site [chemical binding]; other site 688245005309 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 688245005310 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 688245005311 catalytic loop [active] 688245005312 iron binding site [ion binding]; other site 688245005313 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 688245005314 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 688245005315 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 688245005316 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 688245005317 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 688245005318 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 688245005319 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 688245005320 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245005321 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245005322 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; cl17220 688245005323 Squalene epoxidase; Region: SE; cl17314 688245005324 Cupin; Region: Cupin_6; pfam12852 688245005325 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245005326 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 688245005327 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245005328 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 688245005329 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 688245005330 N-terminal plug; other site 688245005331 ligand-binding site [chemical binding]; other site 688245005332 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 688245005333 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 688245005334 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 688245005335 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 688245005336 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 688245005337 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 688245005338 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 688245005339 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 688245005340 active site 688245005341 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245005342 Coenzyme A binding pocket [chemical binding]; other site 688245005343 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 688245005344 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 688245005345 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 688245005346 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 688245005347 dimerization interface [polypeptide binding]; other site 688245005348 thymidylate kinase; Validated; Region: tmk; PRK00698 688245005349 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 688245005350 TMP-binding site; other site 688245005351 ATP-binding site [chemical binding]; other site 688245005352 DNA polymerase III subunit delta'; Validated; Region: PRK06964 688245005353 DNA polymerase III subunit delta'; Validated; Region: PRK08485 688245005354 PilZ domain; Region: PilZ; cl01260 688245005355 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 688245005356 active site 688245005357 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 688245005358 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 688245005359 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 688245005360 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 688245005361 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 688245005362 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245005363 Walker A/P-loop; other site 688245005364 ATP binding site [chemical binding]; other site 688245005365 Q-loop/lid; other site 688245005366 ABC transporter signature motif; other site 688245005367 Walker B; other site 688245005368 D-loop; other site 688245005369 H-loop/switch region; other site 688245005370 translocation protein TolB; Provisional; Region: tolB; PRK02889 688245005371 TolB amino-terminal domain; Region: TolB_N; pfam04052 688245005372 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 688245005373 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 688245005374 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 688245005375 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 688245005376 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 688245005377 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 688245005378 ligand binding site [chemical binding]; other site 688245005379 HemX; Region: HemX; cl19375 688245005380 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 688245005381 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 688245005382 binding surface 688245005383 TPR motif; other site 688245005384 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 688245005385 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 688245005386 putative ATP binding site [chemical binding]; other site 688245005387 putative substrate interface [chemical binding]; other site 688245005388 Cytochrome c2 [Energy production and conversion]; Region: COG3474 688245005389 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 688245005390 dinuclear metal binding motif [ion binding]; other site 688245005391 RNA polymerase sigma factor; Provisional; Region: PRK11922 688245005392 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 688245005393 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 688245005394 DNA binding residues [nucleotide binding] 688245005395 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 688245005396 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 688245005397 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245005398 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 688245005399 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 688245005400 DNA binding residues [nucleotide binding] 688245005401 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 688245005402 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 688245005403 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 688245005404 FeS/SAM binding site; other site 688245005405 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 688245005406 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 688245005407 Walker A motif; other site 688245005408 ATP binding site [chemical binding]; other site 688245005409 Walker B motif; other site 688245005410 DNA polymerase III subunit delta'; Validated; Region: PRK08485 688245005411 arginine finger; other site 688245005412 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 688245005413 hypothetical protein; Validated; Region: PRK00153 688245005414 recombination protein RecR; Reviewed; Region: recR; PRK00076 688245005415 RecR protein; Region: RecR; pfam02132 688245005416 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 688245005417 putative active site [active] 688245005418 putative metal-binding site [ion binding]; other site 688245005419 tetramer interface [polypeptide binding]; other site 688245005420 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 688245005421 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 688245005422 N-acetyl-D-glucosamine binding site [chemical binding]; other site 688245005423 catalytic residue [active] 688245005424 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 688245005425 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 688245005426 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 688245005427 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 688245005428 RNA/DNA hybrid binding site [nucleotide binding]; other site 688245005429 active site 688245005430 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 688245005431 catalytic residues [active] 688245005432 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 688245005433 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 688245005434 dimer interface [polypeptide binding]; other site 688245005435 putative functional site; other site 688245005436 putative MPT binding site; other site 688245005437 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 688245005438 GTP binding site; other site 688245005439 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 688245005440 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 688245005441 FeS/SAM binding site; other site 688245005442 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 688245005443 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 688245005444 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 688245005445 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 688245005446 ligand binding site [chemical binding]; other site 688245005447 flexible hinge region; other site 688245005448 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 688245005449 non-specific DNA interactions [nucleotide binding]; other site 688245005450 DNA binding site [nucleotide binding] 688245005451 sequence specific DNA binding site [nucleotide binding]; other site 688245005452 putative cAMP binding site [chemical binding]; other site 688245005453 Protein of unknown function (DUF962); Region: DUF962; cl01879 688245005454 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 688245005455 dimer interface [polypeptide binding]; other site 688245005456 substrate binding site [chemical binding]; other site 688245005457 metal binding sites [ion binding]; metal-binding site 688245005458 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 688245005459 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 688245005460 dimerization interface [polypeptide binding]; other site 688245005461 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 688245005462 dimer interface [polypeptide binding]; other site 688245005463 putative CheW interface [polypeptide binding]; other site 688245005464 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 688245005465 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 688245005466 dimerization interface [polypeptide binding]; other site 688245005467 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 688245005468 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 688245005469 dimer interface [polypeptide binding]; other site 688245005470 putative CheW interface [polypeptide binding]; other site 688245005471 Protein of unknown function, DUF482; Region: DUF482; pfam04339 688245005472 NAD synthetase; Provisional; Region: PRK13981 688245005473 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 688245005474 multimer interface [polypeptide binding]; other site 688245005475 active site 688245005476 catalytic triad [active] 688245005477 protein interface 1 [polypeptide binding]; other site 688245005478 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 688245005479 homodimer interface [polypeptide binding]; other site 688245005480 NAD binding pocket [chemical binding]; other site 688245005481 ATP binding pocket [chemical binding]; other site 688245005482 Mg binding site [ion binding]; other site 688245005483 active-site loop [active] 688245005484 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 688245005485 Nitrogen regulatory protein P-II; Region: P-II; smart00938 688245005486 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 688245005487 Integral membrane diacylglycerol kinase; Region: DAGK_IM; cd14264 688245005488 putative active site [active] 688245005489 trimer interface [polypeptide binding]; other site 688245005490 putative active site [active] 688245005491 Zn binding site [ion binding]; other site 688245005492 RDD family; Region: RDD; pfam06271 688245005493 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 688245005494 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 688245005495 RNA polymerase factor sigma-70; Validated; Region: PRK09047 688245005496 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 688245005497 DNA binding residues [nucleotide binding] 688245005498 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 688245005499 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 688245005500 PYR/PP interface [polypeptide binding]; other site 688245005501 dimer interface [polypeptide binding]; other site 688245005502 TPP binding site [chemical binding]; other site 688245005503 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 688245005504 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 688245005505 TPP-binding site [chemical binding]; other site 688245005506 dimer interface [polypeptide binding]; other site 688245005507 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 688245005508 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 688245005509 putative valine binding site [chemical binding]; other site 688245005510 dimer interface [polypeptide binding]; other site 688245005511 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 688245005512 ketol-acid reductoisomerase; Provisional; Region: PRK05479 688245005513 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 688245005514 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 688245005515 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 688245005516 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 688245005517 2-isopropylmalate synthase; Validated; Region: PRK03739 688245005518 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 688245005519 active site 688245005520 catalytic residues [active] 688245005521 metal binding site [ion binding]; metal-binding site 688245005522 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 688245005523 2-isopropylmalate synthase; Validated; Region: PRK00915 688245005524 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 688245005525 active site 688245005526 catalytic residues [active] 688245005527 metal binding site [ion binding]; metal-binding site 688245005528 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 688245005529 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 688245005530 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 688245005531 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 688245005532 Transcriptional regulator [Transcription]; Region: IclR; COG1414 688245005533 Bacterial transcriptional regulator; Region: IclR; pfam01614 688245005534 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 688245005535 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 688245005536 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 688245005537 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 688245005538 elongation factor P; Validated; Region: PRK00529 688245005539 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 688245005540 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 688245005541 RNA binding site [nucleotide binding]; other site 688245005542 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 688245005543 RNA binding site [nucleotide binding]; other site 688245005544 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 688245005545 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245005546 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245005547 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 688245005548 putative dimerization interface [polypeptide binding]; other site 688245005549 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 688245005550 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 688245005551 active site 688245005552 catalytic residues [active] 688245005553 metal binding site [ion binding]; metal-binding site 688245005554 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245005555 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 688245005556 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 688245005557 GIY-YIG motif/motif A; other site 688245005558 active site 688245005559 catalytic site [active] 688245005560 putative DNA binding site [nucleotide binding]; other site 688245005561 metal binding site [ion binding]; metal-binding site 688245005562 UvrB/uvrC motif; Region: UVR; pfam02151 688245005563 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 688245005564 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 688245005565 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 688245005566 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 688245005567 IHF dimer interface [polypeptide binding]; other site 688245005568 IHF - DNA interface [nucleotide binding]; other site 688245005569 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245005570 metal binding site [ion binding]; metal-binding site 688245005571 active site 688245005572 I-site; other site 688245005573 Putative exonuclease, RdgC; Region: RdgC; cl01122 688245005574 periplasmic folding chaperone; Provisional; Region: PRK10788 688245005575 SurA N-terminal domain; Region: SurA_N_3; cl07813 688245005576 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 688245005577 Protein of unknown function (DUF1641); Region: DUF1641; pfam07849 688245005578 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 688245005579 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 688245005580 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 688245005581 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 688245005582 rRNA binding site [nucleotide binding]; other site 688245005583 predicted 30S ribosome binding site; other site 688245005584 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 688245005585 PII uridylyl-transferase; Provisional; Region: PRK03059 688245005586 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 688245005587 metal binding triad; other site 688245005588 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 688245005589 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 688245005590 Zn2+ binding site [ion binding]; other site 688245005591 Mg2+ binding site [ion binding]; other site 688245005592 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 688245005593 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 688245005594 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 688245005595 active site 688245005596 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 688245005597 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 688245005598 dimerization interface [polypeptide binding]; other site 688245005599 ATP binding site [chemical binding]; other site 688245005600 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 688245005601 dimerization interface [polypeptide binding]; other site 688245005602 ATP binding site [chemical binding]; other site 688245005603 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 688245005604 putative active site [active] 688245005605 catalytic triad [active] 688245005606 Protein of unknown function, DUF; Region: DUF411; cl01142 688245005607 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 688245005608 non-specific DNA binding site [nucleotide binding]; other site 688245005609 salt bridge; other site 688245005610 sequence-specific DNA binding site [nucleotide binding]; other site 688245005611 SWIM zinc finger; Region: SWIM; pfam04434 688245005612 MoxR-like ATPases [General function prediction only]; Region: COG0714 688245005613 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 688245005614 Walker A motif; other site 688245005615 ATP binding site [chemical binding]; other site 688245005616 Walker B motif; other site 688245005617 arginine finger; other site 688245005618 VWA YIEM type: 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_YIEM_type; cd01462 688245005619 metal ion-dependent adhesion site (MIDAS); other site 688245005620 Protein of unknown function (DUF808); Region: DUF808; pfam05661 688245005621 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 688245005622 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 688245005623 Histidine-specific methyltransferase, SAM-dependent; Region: Methyltransf_33; pfam10017 688245005624 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 688245005625 DinB superfamily; Region: DinB_2; pfam12867 688245005626 Sulfatase-modifying factor enzyme 1; Region: FGE-sulfatase; cl19582 688245005627 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 688245005628 homodimer interface [polypeptide binding]; other site 688245005629 substrate-cofactor binding pocket; other site 688245005630 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245005631 catalytic residue [active] 688245005632 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245005633 metal binding site [ion binding]; metal-binding site 688245005634 active site 688245005635 I-site; other site 688245005636 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 688245005637 catalytic site [active] 688245005638 putative active site [active] 688245005639 putative substrate binding site [chemical binding]; other site 688245005640 enoyl-CoA hydratase; Provisional; Region: PRK06688 688245005641 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 688245005642 substrate binding site [chemical binding]; other site 688245005643 oxyanion hole (OAH) forming residues; other site 688245005644 trimer interface [polypeptide binding]; other site 688245005645 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 688245005646 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 688245005647 acyl-activating enzyme (AAE) consensus motif; other site 688245005648 putative AMP binding site [chemical binding]; other site 688245005649 putative active site [active] 688245005650 putative CoA binding site [chemical binding]; other site 688245005651 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245005652 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245005653 active site 688245005654 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 688245005655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245005656 NAD(P) binding site [chemical binding]; other site 688245005657 active site 688245005658 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 688245005659 active site 688245005660 catalytic site [active] 688245005661 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 688245005662 active site 688245005663 catalytic site [active] 688245005664 lipid-transfer protein; Provisional; Region: PRK08256 688245005665 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 688245005666 active site 688245005667 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 688245005668 Helix-turn-helix domain; Region: HTH_18; pfam12833 688245005669 SurA N-terminal domain; Region: SurA_N; pfam09312 688245005670 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 688245005671 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 688245005672 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 688245005673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245005674 NAD(P) binding site [chemical binding]; other site 688245005675 active site 688245005676 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 688245005677 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 688245005678 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245005679 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245005680 active site 688245005681 enoyl-CoA hydratase; Provisional; Region: PRK05995 688245005682 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 688245005683 substrate binding site [chemical binding]; other site 688245005684 oxyanion hole (OAH) forming residues; other site 688245005685 trimer interface [polypeptide binding]; other site 688245005686 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 688245005687 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 688245005688 ATP-grasp domain; Region: ATP-grasp_4; cl17255 688245005689 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 688245005690 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 688245005691 carboxyltransferase (CT) interaction site; other site 688245005692 biotinylation site [posttranslational modification]; other site 688245005693 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245005694 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245005695 active site 688245005696 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 688245005697 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 688245005698 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 688245005699 acyl-activating enzyme (AAE) consensus motif; other site 688245005700 AMP binding site [chemical binding]; other site 688245005701 active site 688245005702 CoA binding site [chemical binding]; other site 688245005703 short chain dehydrogenase; Provisional; Region: PRK07576 688245005704 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245005705 NAD(P) binding site [chemical binding]; other site 688245005706 active site 688245005707 acyl-CoA synthetase; Validated; Region: PRK08316 688245005708 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 688245005709 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 688245005710 acyl-activating enzyme (AAE) consensus motif; other site 688245005711 acyl-activating enzyme (AAE) consensus motif; other site 688245005712 putative AMP binding site [chemical binding]; other site 688245005713 putative active site [active] 688245005714 putative CoA binding site [chemical binding]; other site 688245005715 hypothetical protein; Provisional; Region: PRK06194 688245005716 classical (c) SDRs; Region: SDR_c; cd05233 688245005717 NAD(P) binding site [chemical binding]; other site 688245005718 active site 688245005719 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 688245005720 classical (c) SDRs; Region: SDR_c; cd05233 688245005721 NAD(P) binding site [chemical binding]; other site 688245005722 active site 688245005723 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 688245005724 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 688245005725 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 688245005726 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 688245005727 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 688245005728 Collagenase; Region: DUF3656; pfam12392 688245005729 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; cd02883 688245005730 nudix motif; other site 688245005731 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 688245005732 RNA 2'-phosphotransferase, Tpt1 / KptA family; Region: PTS_2-RNA; pfam01885 688245005733 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 688245005734 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 688245005735 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 688245005736 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 688245005737 dimerization interface [polypeptide binding]; other site 688245005738 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 688245005739 ligand binding site [chemical binding]; other site 688245005740 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 688245005741 nucleoside/Zn binding site; other site 688245005742 dimer interface [polypeptide binding]; other site 688245005743 catalytic motif [active] 688245005744 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 688245005745 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 688245005746 dimer interface [polypeptide binding]; other site 688245005747 catalytic triad [active] 688245005748 SpoIIAA-like; Region: SpoIIAA-like; pfam11964 688245005749 elongation factor G; Reviewed; Region: PRK00007 688245005750 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 688245005751 G1 box; other site 688245005752 putative GEF interaction site [polypeptide binding]; other site 688245005753 GTP/Mg2+ binding site [chemical binding]; other site 688245005754 Switch I region; other site 688245005755 G2 box; other site 688245005756 G3 box; other site 688245005757 Switch II region; other site 688245005758 G4 box; other site 688245005759 G5 box; other site 688245005760 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 688245005761 Elongation Factor G, domain II; Region: EFG_II; pfam14492 688245005762 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 688245005763 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 688245005764 Penicillin amidase; Region: Penicil_amidase; pfam01804 688245005765 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 688245005766 active site 688245005767 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245005768 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 688245005769 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245005770 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 688245005771 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 688245005772 active site 688245005773 catalytic tetrad [active] 688245005774 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 688245005775 putative deacylase active site [active] 688245005776 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 688245005777 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 688245005778 Transcription elongation factor Elf1 like; Region: Elf1; cl02038 688245005779 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 688245005780 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 688245005781 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 688245005782 S-adenosylmethionine binding site [chemical binding]; other site 688245005783 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 688245005784 Zn2+ binding site [ion binding]; other site 688245005785 Mg2+ binding site [ion binding]; other site 688245005786 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 688245005787 catalytic motif [active] 688245005788 Catalytic residue [active] 688245005789 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 688245005790 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 688245005791 FAD binding domain; Region: FAD_binding_4; pfam01565 688245005792 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 688245005793 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 688245005794 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 688245005795 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 688245005796 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 688245005797 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 688245005798 3beta17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 3beta-17beta-HSD_like_SDR_c; cd05341 688245005799 homotetramer interface [polypeptide binding]; other site 688245005800 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 688245005801 NAD binding site [chemical binding]; other site 688245005802 homodimer interface [polypeptide binding]; other site 688245005803 active site 688245005804 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_15; cd07264 688245005805 Sel1-like repeats; Region: SEL1; smart00671 688245005806 Sel1-like repeats; Region: SEL1; smart00671 688245005807 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 688245005808 Sel1-like repeats; Region: SEL1; smart00671 688245005809 Sel1-like repeats; Region: SEL1; smart00671 688245005810 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_2; cd07253 688245005811 dimer interface [polypeptide binding]; other site 688245005812 metal binding site [ion binding]; metal-binding site 688245005813 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 688245005814 Bacterial regulatory proteins, tetR family; Region: TetR_N; cl19382 688245005815 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 688245005816 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 688245005817 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245005818 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 688245005819 MMPL family; Region: MMPL; cl14618 688245005820 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 688245005821 Outer membrane efflux protein; Region: OEP; pfam02321 688245005822 Outer membrane efflux protein; Region: OEP; pfam02321 688245005823 RNA polymerase sigma factor; Provisional; Region: PRK12528 688245005824 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 688245005825 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 688245005826 DNA binding residues [nucleotide binding] 688245005827 fec operon regulator FecR; Reviewed; Region: PRK09774 688245005828 FecR protein; Region: FecR; pfam04773 688245005829 Secretin and TonB N terminus short domain; Region: STN; smart00965 688245005830 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 688245005831 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 688245005832 N-terminal plug; other site 688245005833 ligand-binding site [chemical binding]; other site 688245005834 prohibitin homologues; Region: PHB; smart00244 688245005835 Paraslipin or slipin-2 (SLP-2, a subgroup of the stomatin-like proteins (slipins) family; belonging to the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_paraslipin; cd08829 688245005836 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 688245005837 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 688245005838 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 688245005839 Orn/Lys/Arg decarboxylase, major domain; Region: OKR_DC_1; pfam01276 688245005840 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 688245005841 catalytic residue [active] 688245005842 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 688245005843 Predicted integral membrane protein [Function unknown]; Region: COG5652 688245005844 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245005845 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 688245005846 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 688245005847 active site 688245005848 catalytic residues [active] 688245005849 metal binding site [ion binding]; metal-binding site 688245005850 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 688245005851 Transcriptional regulator [Transcription]; Region: IclR; COG1414 688245005852 Bacterial transcriptional regulator; Region: IclR; pfam01614 688245005853 DNA ligase; Provisional; Region: PRK09125 688245005854 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 688245005855 DNA binding site [nucleotide binding] 688245005856 active site 688245005857 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 688245005858 DNA binding site [nucleotide binding] 688245005859 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 688245005860 E-class dimer interface [polypeptide binding]; other site 688245005861 P-class dimer interface [polypeptide binding]; other site 688245005862 active site 688245005863 Cu2+ binding site [ion binding]; other site 688245005864 Zn2+ binding site [ion binding]; other site 688245005865 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 688245005866 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 688245005867 NAD binding site [chemical binding]; other site 688245005868 homotetramer interface [polypeptide binding]; other site 688245005869 homodimer interface [polypeptide binding]; other site 688245005870 substrate binding site [chemical binding]; other site 688245005871 active site 688245005872 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 688245005873 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 688245005874 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 688245005875 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 688245005876 dimer interface [polypeptide binding]; other site 688245005877 conserved gate region; other site 688245005878 putative PBP binding loops; other site 688245005879 ABC-ATPase subunit interface; other site 688245005880 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 688245005881 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 688245005882 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 688245005883 dimer interface [polypeptide binding]; other site 688245005884 conserved gate region; other site 688245005885 putative PBP binding loops; other site 688245005886 ABC-ATPase subunit interface; other site 688245005887 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 688245005888 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 688245005889 Walker A/P-loop; other site 688245005890 ATP binding site [chemical binding]; other site 688245005891 Q-loop/lid; other site 688245005892 ABC transporter signature motif; other site 688245005893 Walker B; other site 688245005894 D-loop; other site 688245005895 H-loop/switch region; other site 688245005896 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 688245005897 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 688245005898 Walker A/P-loop; other site 688245005899 ATP binding site [chemical binding]; other site 688245005900 Q-loop/lid; other site 688245005901 ABC transporter signature motif; other site 688245005902 Walker B; other site 688245005903 D-loop; other site 688245005904 H-loop/switch region; other site 688245005905 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 688245005906 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 688245005907 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 688245005908 HSP70 interaction site [polypeptide binding]; other site 688245005909 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 688245005910 substrate binding site [polypeptide binding]; other site 688245005911 dimer interface [polypeptide binding]; other site 688245005912 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 688245005913 catalytic residues [active] 688245005914 Sm and related proteins; Region: Sm_like; cl00259 688245005915 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 688245005916 putative RNA binding site [nucleotide binding]; other site 688245005917 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 688245005918 NusA N-terminal domain; Region: NusA_N; pfam08529 688245005919 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 688245005920 RNA binding site [nucleotide binding]; other site 688245005921 homodimer interface [polypeptide binding]; other site 688245005922 NusA-like KH domain; Region: KH_5; pfam13184 688245005923 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 688245005924 G-X-X-G motif; other site 688245005925 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 688245005926 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 688245005927 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 688245005928 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 688245005929 translation initiation factor IF-2; Validated; Region: infB; PRK05306 688245005930 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 688245005931 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 688245005932 G1 box; other site 688245005933 putative GEF interaction site [polypeptide binding]; other site 688245005934 GTP/Mg2+ binding site [chemical binding]; other site 688245005935 Switch I region; other site 688245005936 G2 box; other site 688245005937 G3 box; other site 688245005938 Switch II region; other site 688245005939 G4 box; other site 688245005940 G5 box; other site 688245005941 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 688245005942 Translation-initiation factor 2; Region: IF-2; pfam11987 688245005943 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 688245005944 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 688245005945 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 688245005946 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 688245005947 RNA binding site [nucleotide binding]; other site 688245005948 active site 688245005949 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 688245005950 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 688245005951 G1 box; other site 688245005952 putative GEF interaction site [polypeptide binding]; other site 688245005953 GTP/Mg2+ binding site [chemical binding]; other site 688245005954 Switch I region; other site 688245005955 G2 box; other site 688245005956 G3 box; other site 688245005957 Switch II region; other site 688245005958 G4 box; other site 688245005959 G5 box; other site 688245005960 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 688245005961 Elongation Factor G, domain II; Region: EFG_II; pfam14492 688245005962 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 688245005963 Cytochrome c; Region: Cytochrom_C; cl11414 688245005964 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 688245005965 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245005966 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 688245005967 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 688245005968 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245005969 malonyl-CoA synthase; Validated; Region: PRK07514 688245005970 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 688245005971 acyl-activating enzyme (AAE) consensus motif; other site 688245005972 active site 688245005973 AMP binding site [chemical binding]; other site 688245005974 CoA binding site [chemical binding]; other site 688245005975 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 688245005976 Ligand Binding Site [chemical binding]; other site 688245005977 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 688245005978 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 688245005979 metal-binding site [ion binding] 688245005980 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 688245005981 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 688245005982 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 688245005983 cbb3-type cytochrome c oxidase subunit I; Provisional; Region: PRK14488 688245005984 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 688245005985 D-pathway; other site 688245005986 Low-spin heme binding site [chemical binding]; other site 688245005987 Putative water exit pathway; other site 688245005988 Binuclear center (active site) [active] 688245005989 K-pathway; other site 688245005990 Putative proton exit pathway; other site 688245005991 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 688245005992 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 688245005993 N-terminal domain of cytochrome oxidase-cbb3, FixP; Region: FixP_N; pfam14715 688245005994 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 688245005995 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 688245005996 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 688245005997 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 688245005998 4Fe-4S binding domain; Region: Fer4_5; pfam12801 688245005999 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 688245006000 IG-like fold at C-terminal of FixG, putative oxidoreductase; Region: FixG_C; pfam11614 688245006001 FixH; Region: FixH; cl19376 688245006002 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 688245006003 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 688245006004 ligand binding site [chemical binding]; other site 688245006005 flexible hinge region; other site 688245006006 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 688245006007 putative switch regulator; other site 688245006008 non-specific DNA interactions [nucleotide binding]; other site 688245006009 DNA binding site [nucleotide binding] 688245006010 sequence specific DNA binding site [nucleotide binding]; other site 688245006011 putative cAMP binding site [chemical binding]; other site 688245006012 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 688245006013 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 688245006014 FeS/SAM binding site; other site 688245006015 HemN C-terminal domain; Region: HemN_C; pfam06969 688245006016 Cytochrome C biogenesis protein transmembrane region; Region: DsbD_2; pfam13386 688245006017 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 688245006018 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 688245006019 Zn2+ binding site [ion binding]; other site 688245006020 Mg2+ binding site [ion binding]; other site 688245006021 PAS domain; Region: PAS; smart00091 688245006022 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 688245006023 PAS domain; Region: PAS; smart00091 688245006024 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 688245006025 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 688245006026 putative active site [active] 688245006027 heme pocket [chemical binding]; other site 688245006028 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245006029 metal binding site [ion binding]; metal-binding site 688245006030 active site 688245006031 I-site; other site 688245006032 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 688245006033 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 688245006034 putative active site [active] 688245006035 heme pocket [chemical binding]; other site 688245006036 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 688245006037 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 688245006038 DNA binding residues [nucleotide binding] 688245006039 dimerization interface [polypeptide binding]; other site 688245006040 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 688245006041 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 688245006042 classical (c) SDRs; Region: SDR_c; cd05233 688245006043 NAD(P) binding site [chemical binding]; other site 688245006044 active site 688245006045 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 688245006046 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245006047 metal binding site [ion binding]; metal-binding site 688245006048 active site 688245006049 I-site; other site 688245006050 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245006051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245006052 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 688245006053 putative dimerization interface [polypeptide binding]; other site 688245006054 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 688245006055 conserved cys residue [active] 688245006056 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 688245006057 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 688245006058 Diaminopimelate epimerase; Region: DAP_epimerase; cl19724 688245006059 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245006060 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; cl17220 688245006061 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 688245006062 beta-alpha-beta structure motif; other site 688245006063 NAD binding pocket [chemical binding]; other site 688245006064 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 688245006065 catalytic loop [active] 688245006066 iron binding site [ion binding]; other site 688245006067 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 688245006068 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 688245006069 iron-sulfur cluster [ion binding]; other site 688245006070 [2Fe-2S] cluster binding site [ion binding]; other site 688245006071 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 688245006072 alpha subunit interface [polypeptide binding]; other site 688245006073 active site 688245006074 substrate binding site [chemical binding]; other site 688245006075 Fe binding site [ion binding]; other site 688245006076 benzoate transport; Region: 2A0115; TIGR00895 688245006077 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 688245006078 putative substrate translocation pore; other site 688245006079 Staphylococcal nuclease homologues; Region: SNc; smart00318 688245006080 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 688245006081 Catalytic site; other site 688245006082 Cell division protein ZapA; Region: ZapA; pfam05164 688245006083 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 688245006084 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 688245006085 N-terminal plug; other site 688245006086 ligand-binding site [chemical binding]; other site 688245006087 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 688245006088 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 688245006089 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 688245006090 catalytic triad [active] 688245006091 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; pfam02283 688245006092 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 688245006093 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 688245006094 intersubunit interface [polypeptide binding]; other site 688245006095 FecCD transport family; Region: FecCD; pfam01032 688245006096 ABC-ATPase subunit interface; other site 688245006097 dimer interface [polypeptide binding]; other site 688245006098 putative PBP binding regions; other site 688245006099 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 688245006100 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 688245006101 Walker A/P-loop; other site 688245006102 ATP binding site [chemical binding]; other site 688245006103 Q-loop/lid; other site 688245006104 ABC transporter signature motif; other site 688245006105 Walker B; other site 688245006106 D-loop; other site 688245006107 H-loop/switch region; other site 688245006108 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 688245006109 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 688245006110 homodimer interface [polypeptide binding]; other site 688245006111 Walker A motif; other site 688245006112 ATP binding site [chemical binding]; other site 688245006113 hydroxycobalamin binding site [chemical binding]; other site 688245006114 Walker B motif; other site 688245006115 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 688245006116 putative FMN binding site [chemical binding]; other site 688245006117 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 688245006118 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 688245006119 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; cl18945 688245006120 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 688245006121 catalytic residue [active] 688245006122 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 688245006123 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 688245006124 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 688245006125 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 688245006126 catalytic triad [active] 688245006127 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 688245006128 putative dimer interface [polypeptide binding]; other site 688245006129 active site pocket [active] 688245006130 putative cataytic base [active] 688245006131 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 688245006132 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 688245006133 minor groove reading motif; other site 688245006134 helix-hairpin-helix signature motif; other site 688245006135 substrate binding pocket [chemical binding]; other site 688245006136 active site 688245006137 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 688245006138 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 688245006139 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 688245006140 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 688245006141 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 688245006142 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245006143 homodimer interface [polypeptide binding]; other site 688245006144 catalytic residue [active] 688245006145 SlyX; Region: SlyX; pfam04102 688245006146 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 688245006147 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 688245006148 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 688245006149 putative metal binding site [ion binding]; other site 688245006150 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245006151 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 688245006152 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 688245006153 substrate binding pocket [chemical binding]; other site 688245006154 membrane-bound complex binding site; other site 688245006155 hinge residues; other site 688245006156 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 688245006157 dimer interface [polypeptide binding]; other site 688245006158 conserved gate region; other site 688245006159 putative PBP binding loops; other site 688245006160 ABC-ATPase subunit interface; other site 688245006161 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 688245006162 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 688245006163 dimer interface [polypeptide binding]; other site 688245006164 conserved gate region; other site 688245006165 putative PBP binding loops; other site 688245006166 ABC-ATPase subunit interface; other site 688245006167 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245006168 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245006169 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 688245006170 dimerization interface [polypeptide binding]; other site 688245006171 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 688245006172 active site 688245006173 SAM binding site [chemical binding]; other site 688245006174 homodimer interface [polypeptide binding]; other site 688245006175 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 688245006176 active site 688245006177 SAM binding site [chemical binding]; other site 688245006178 homodimer interface [polypeptide binding]; other site 688245006179 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 688245006180 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 688245006181 active site 688245006182 putative homodimer interface [polypeptide binding]; other site 688245006183 SAM binding site [chemical binding]; other site 688245006184 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 688245006185 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 688245006186 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 688245006187 active site 688245006188 SAM binding site [chemical binding]; other site 688245006189 homodimer interface [polypeptide binding]; other site 688245006190 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 688245006191 active site 688245006192 SAM binding site [chemical binding]; other site 688245006193 homodimer interface [polypeptide binding]; other site 688245006194 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 688245006195 precorrin-3B synthase; Region: CobG; TIGR02435 688245006196 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 688245006197 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; cl00057 688245006198 metal ion-dependent adhesion site (MIDAS); other site 688245006199 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 688245006200 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 688245006201 Walker A motif; other site 688245006202 ATP binding site [chemical binding]; other site 688245006203 Walker B motif; other site 688245006204 arginine finger; other site 688245006205 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 688245006206 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 688245006207 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 688245006208 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 688245006209 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 688245006210 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 688245006211 active site 688245006212 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 688245006213 dimer interface [polypeptide binding]; other site 688245006214 [2Fe-2S] cluster binding site [ion binding]; other site 688245006215 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 688245006216 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 688245006217 Walker A/P-loop; other site 688245006218 ATP binding site [chemical binding]; other site 688245006219 Q-loop/lid; other site 688245006220 ABC transporter signature motif; other site 688245006221 Walker B; other site 688245006222 D-loop; other site 688245006223 H-loop/switch region; other site 688245006224 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 688245006225 ABC-ATPase subunit interface; other site 688245006226 dimer interface [polypeptide binding]; other site 688245006227 putative PBP binding regions; other site 688245006228 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 688245006229 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 688245006230 putative ligand binding residues [chemical binding]; other site 688245006231 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 688245006232 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 688245006233 N-terminal plug; other site 688245006234 ligand-binding site [chemical binding]; other site 688245006235 Integrase core domain; Region: rve; pfam00665 688245006236 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 688245006237 non-specific DNA binding site [nucleotide binding]; other site 688245006238 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 688245006239 salt bridge; other site 688245006240 sequence-specific DNA binding site [nucleotide binding]; other site 688245006241 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09775 688245006242 HipA-like N-terminal domain; Region: HipA_N; pfam07805 688245006243 HipA-like C-terminal domain; Region: HipA_C; pfam07804 688245006244 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245006245 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245006246 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 688245006247 dimerization interface [polypeptide binding]; other site 688245006248 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 688245006249 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 688245006250 conserved cys residue [active] 688245006251 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245006252 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245006253 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 688245006254 active site residue [active] 688245006255 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245006256 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245006257 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 688245006258 putative dimerization interface [polypeptide binding]; other site 688245006259 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245006260 Transposase; Region: HTH_Tnp_1; pfam01527 688245006261 Integrase core domain; Region: rve; pfam00665 688245006262 Integrase core domain; Region: rve_3; pfam13683 688245006263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 688245006264 Anti-sigma-K factor rskA; Region: RskA; pfam10099 688245006265 RNA polymerase sigma factor; Provisional; Region: PRK12537 688245006266 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 688245006267 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 688245006268 DNA binding residues [nucleotide binding] 688245006269 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 688245006270 MgtC family; Region: MgtC; pfam02308 688245006271 Predicted membrane protein [Function unknown]; Region: COG3174 688245006272 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 688245006273 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 688245006274 dimerization interface [polypeptide binding]; other site 688245006275 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245006276 metal binding site [ion binding]; metal-binding site 688245006277 active site 688245006278 I-site; other site 688245006279 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245006280 Lipocalin-like domain; Region: Lipocalin_2; cl19222 688245006281 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245006282 short chain dehydrogenase; Provisional; Region: PRK07024 688245006283 NAD(P) binding site [chemical binding]; other site 688245006284 active site 688245006285 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 688245006286 MFS/sugar transport protein; Region: MFS_2; pfam13347 688245006287 putative symporter YagG; Provisional; Region: PRK09669; cl15392 688245006288 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 688245006289 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 688245006290 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 688245006291 S-adenosylmethionine binding site [chemical binding]; other site 688245006292 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 688245006293 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 688245006294 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 688245006295 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 688245006296 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 688245006297 SnoaL-like domain; Region: SnoaL_2; pfam12680 688245006298 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; cl18945 688245006299 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 688245006300 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245006301 DNA-binding site [nucleotide binding]; DNA binding site 688245006302 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 688245006303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245006304 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 688245006305 Sulfatase; Region: Sulfatase; pfam00884 688245006306 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245006307 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 688245006308 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245006309 NAD(P) binding site [chemical binding]; other site 688245006310 active site 688245006311 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 688245006312 NAD(P) binding site [chemical binding]; other site 688245006313 catalytic residues [active] 688245006314 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 688245006315 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 688245006316 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 688245006317 shikimate binding site; other site 688245006318 NAD(P) binding site [chemical binding]; other site 688245006319 choline dehydrogenase; Validated; Region: PRK02106 688245006320 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245006321 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245006322 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 688245006323 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 688245006324 Ligand binding site [chemical binding]; other site 688245006325 Electron transfer flavoprotein domain; Region: ETF; pfam01012 688245006326 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 688245006327 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 688245006328 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 688245006329 Domain of unknown function (DUF202); Region: DUF202; cl09954 688245006330 Domain of unknown function (DUF202); Region: DUF202; pfam02656 688245006331 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 688245006332 active site 688245006333 DNA binding site [nucleotide binding] 688245006334 Int/Topo IB signature motif; other site 688245006335 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 688245006336 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 688245006337 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 688245006338 dimer interface [polypeptide binding]; other site 688245006339 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 688245006340 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 688245006341 Walker A motif; other site 688245006342 ATP binding site [chemical binding]; other site 688245006343 Walker B motif; other site 688245006344 arginine finger; other site 688245006345 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 688245006346 non-specific DNA binding site [nucleotide binding]; other site 688245006347 salt bridge; other site 688245006348 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 688245006349 sequence-specific DNA binding site [nucleotide binding]; other site 688245006350 Integrase core domain; Region: rve; pfam00665 688245006351 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 688245006352 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 688245006353 non-specific DNA binding site [nucleotide binding]; other site 688245006354 salt bridge; other site 688245006355 sequence-specific DNA binding site [nucleotide binding]; other site 688245006356 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 688245006357 active site 688245006358 catalytic residues [active] 688245006359 DNA binding site [nucleotide binding] 688245006360 Int/Topo IB signature motif; other site 688245006361 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 688245006362 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 688245006363 active site 688245006364 catalytic residues [active] 688245006365 DNA binding site [nucleotide binding] 688245006366 Int/Topo IB signature motif; other site 688245006367 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 688245006368 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 688245006369 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245006370 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 688245006371 dimerization interface [polypeptide binding]; other site 688245006372 LysE type translocator; Region: LysE; cl00565 688245006373 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 688245006374 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 688245006375 putative DNA binding site [nucleotide binding]; other site 688245006376 putative Zn2+ binding site [ion binding]; other site 688245006377 AsnC family; Region: AsnC_trans_reg; pfam01037 688245006378 threonine and homoserine efflux system; Provisional; Region: PRK10532 688245006379 EamA-like transporter family; Region: EamA; pfam00892 688245006380 PrkA family serine protein kinase; Provisional; Region: PRK15455 688245006381 PrkA AAA domain; Region: AAA_PrkA; pfam08298 688245006382 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 688245006383 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 688245006384 metal ion-dependent adhesion site (MIDAS); other site 688245006385 SpoVR family protein; Provisional; Region: PRK11767 688245006386 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 688245006387 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 688245006388 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 688245006389 PAS domain; Region: PAS_9; pfam13426 688245006390 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245006391 metal binding site [ion binding]; metal-binding site 688245006392 active site 688245006393 I-site; other site 688245006394 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 688245006395 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 688245006396 DNA binding residues [nucleotide binding] 688245006397 fec operon regulator FecR; Reviewed; Region: PRK09774 688245006398 FecR protein; Region: FecR; pfam04773 688245006399 Secretin and TonB N terminus short domain; Region: STN; smart00965 688245006400 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 688245006401 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 688245006402 N-terminal plug; other site 688245006403 ligand-binding site [chemical binding]; other site 688245006404 RNA polymerase sigma-70 factor, Bacteroides expansion family 1; Region: Sig70_bacteroi1; TIGR02985 688245006405 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 688245006406 DNA binding residues [nucleotide binding] 688245006407 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 688245006408 FecR protein; Region: FecR; pfam04773 688245006409 Secretin and TonB N terminus short domain; Region: STN; smart00965 688245006410 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 688245006411 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 688245006412 N-terminal plug; other site 688245006413 ligand-binding site [chemical binding]; other site 688245006414 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 688245006415 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 688245006416 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 688245006417 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 688245006418 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 688245006419 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 688245006420 haloacid dehalogenase-like hydrolase; Region: HAD; cl19137 688245006421 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 688245006422 motif II; other site 688245006423 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245006424 Predicted membrane protein [Function unknown]; Region: COG3235 688245006425 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 688245006426 Bifunctional transglycosylase second domain; Region: UB2H; pfam14814 688245006427 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 688245006428 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 688245006429 ATP binding site [chemical binding]; other site 688245006430 putative Mg++ binding site [ion binding]; other site 688245006431 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 688245006432 nucleotide binding region [chemical binding]; other site 688245006433 ATP-binding site [chemical binding]; other site 688245006434 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 688245006435 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 688245006436 substrate binding site; other site 688245006437 dimer interface; other site 688245006438 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 688245006439 homotrimer interaction site [polypeptide binding]; other site 688245006440 zinc binding site [ion binding]; other site 688245006441 CDP-binding sites; other site 688245006442 Uncharacterized conserved protein [Function unknown]; Region: COG3791 688245006443 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 688245006444 dimerization interface [polypeptide binding]; other site 688245006445 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 688245006446 dimer interface [polypeptide binding]; other site 688245006447 phosphorylation site [posttranslational modification] 688245006448 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 688245006449 ATP binding site [chemical binding]; other site 688245006450 Mg2+ binding site [ion binding]; other site 688245006451 G-X-G motif; other site 688245006452 osmolarity response regulator; Provisional; Region: ompR; PRK09468 688245006453 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 688245006454 active site 688245006455 phosphorylation site [posttranslational modification] 688245006456 intermolecular recognition site; other site 688245006457 dimerization interface [polypeptide binding]; other site 688245006458 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 688245006459 DNA binding site [nucleotide binding] 688245006460 Protein of unknown function (DUF541); Region: SIMPL; cl01077 688245006461 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 688245006462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245006463 NAD(P) binding site [chemical binding]; other site 688245006464 active site 688245006465 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245006466 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 688245006467 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 688245006468 HD domain; Region: HD_4; pfam13328 688245006469 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 688245006470 synthetase active site [active] 688245006471 NTP binding site [chemical binding]; other site 688245006472 metal binding site [ion binding]; metal-binding site 688245006473 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 688245006474 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 688245006475 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 688245006476 non-specific DNA binding site [nucleotide binding]; other site 688245006477 salt bridge; other site 688245006478 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 688245006479 sequence-specific DNA binding site [nucleotide binding]; other site 688245006480 Integrase core domain; Region: rve; pfam00665 688245006481 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 688245006482 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 688245006483 Walker A motif; other site 688245006484 ATP binding site [chemical binding]; other site 688245006485 Walker B motif; other site 688245006486 arginine finger; other site 688245006487 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 688245006488 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 688245006489 active site 688245006490 catalytic residues [active] 688245006491 DNA binding site [nucleotide binding] 688245006492 Int/Topo IB signature motif; other site 688245006493 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 688245006494 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 688245006495 Anti-sigma-K factor rskA; Region: RskA; pfam10099 688245006496 RNA polymerase sigma factor; Provisional; Region: PRK12514 688245006497 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 688245006498 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 688245006499 DNA binding residues [nucleotide binding] 688245006500 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 688245006501 dinuclear metal binding motif [ion binding]; other site 688245006502 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 688245006503 Transposase; Region: DDE_Tnp_ISL3; pfam01610 688245006504 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 688245006505 Lipocalin-like domain; Region: Lipocalin_2; cl19222 688245006506 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245006507 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 688245006508 DNA photolyase; Region: DNA_photolyase; pfam00875 688245006509 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 688245006510 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 688245006511 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 688245006512 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 688245006513 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 688245006514 NAD(P) binding site [chemical binding]; other site 688245006515 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245006516 active site 688245006517 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 688245006518 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 688245006519 putative active site [active] 688245006520 heme pocket [chemical binding]; other site 688245006521 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 688245006522 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 688245006523 putative active site [active] 688245006524 heme pocket [chemical binding]; other site 688245006525 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 688245006526 dimer interface [polypeptide binding]; other site 688245006527 phosphorylation site [posttranslational modification] 688245006528 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 688245006529 ATP binding site [chemical binding]; other site 688245006530 Mg2+ binding site [ion binding]; other site 688245006531 G-X-G motif; other site 688245006532 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 688245006533 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 688245006534 substrate binding pocket [chemical binding]; other site 688245006535 membrane-bound complex binding site; other site 688245006536 hinge residues; other site 688245006537 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 688245006538 Zn2+ binding site [ion binding]; other site 688245006539 Mg2+ binding site [ion binding]; other site 688245006540 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 688245006541 active site 688245006542 phosphorylation site [posttranslational modification] 688245006543 intermolecular recognition site; other site 688245006544 dimerization interface [polypeptide binding]; other site 688245006545 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 688245006546 active site 688245006547 phosphorylation site [posttranslational modification] 688245006548 intermolecular recognition site; other site 688245006549 dimerization interface [polypeptide binding]; other site 688245006550 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 688245006551 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 688245006552 active site 688245006553 phosphorylation site [posttranslational modification] 688245006554 intermolecular recognition site; other site 688245006555 dimerization interface [polypeptide binding]; other site 688245006556 Hpt domain; Region: Hpt; pfam01627 688245006557 putative binding surface; other site 688245006558 active site 688245006559 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 688245006560 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 688245006561 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 688245006562 dimerization interface [polypeptide binding]; other site 688245006563 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 688245006564 dimer interface [polypeptide binding]; other site 688245006565 putative CheW interface [polypeptide binding]; other site 688245006566 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 688245006567 Integrase core domain; Region: rve; pfam00665 688245006568 Helix-turn-helix domain; Region: HTH_38; pfam13936 688245006569 Protoglobin; Region: Protoglobin; pfam11563 688245006570 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 688245006571 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245006572 metal binding site [ion binding]; metal-binding site 688245006573 active site 688245006574 I-site; other site 688245006575 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 688245006576 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 688245006577 PAS domain; Region: PAS_9; pfam13426 688245006578 putative active site [active] 688245006579 heme pocket [chemical binding]; other site 688245006580 HAMP domain; Region: HAMP; pfam00672 688245006581 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 688245006582 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 688245006583 dimer interface [polypeptide binding]; other site 688245006584 putative CheW interface [polypeptide binding]; other site 688245006585 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 688245006586 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 688245006587 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 688245006588 active site 688245006589 catalytic residues [active] 688245006590 DNA binding site [nucleotide binding] 688245006591 Int/Topo IB signature motif; other site 688245006592 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 688245006593 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 688245006594 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 688245006595 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 688245006596 catalytic residues [active] 688245006597 central insert; other site 688245006598 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 688245006599 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 688245006600 Heme exporter protein D (CcmD); Region: CcmD; pfam04995 688245006601 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 688245006602 CcmB protein; Region: CcmB; cl17444 688245006603 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 688245006604 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245006605 Walker A/P-loop; other site 688245006606 ATP binding site [chemical binding]; other site 688245006607 Q-loop/lid; other site 688245006608 ABC transporter signature motif; other site 688245006609 Walker B; other site 688245006610 D-loop; other site 688245006611 H-loop/switch region; other site 688245006612 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 688245006613 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 688245006614 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 688245006615 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 688245006616 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 688245006617 [4Fe-4S] binding site [ion binding]; other site 688245006618 molybdopterin cofactor binding site; other site 688245006619 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 688245006620 molybdopterin cofactor binding site; other site 688245006621 NapD protein; Region: NapD; pfam03927 688245006622 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 688245006623 SnoaL-like domain; Region: SnoaL_4; pfam13577 688245006624 short chain dehydrogenase; Provisional; Region: PRK07890 688245006625 classical (c) SDRs; Region: SDR_c; cd05233 688245006626 NAD(P) binding site [chemical binding]; other site 688245006627 active site 688245006628 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 688245006629 putative hydrophobic ligand binding site [chemical binding]; other site 688245006630 SnoaL-like domain; Region: SnoaL_4; pfam13577 688245006631 EthD domain; Region: EthD; cl17553 688245006632 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 688245006633 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 688245006634 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 688245006635 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 688245006636 CysD dimerization site [polypeptide binding]; other site 688245006637 G1 box; other site 688245006638 putative GEF interaction site [polypeptide binding]; other site 688245006639 GTP/Mg2+ binding site [chemical binding]; other site 688245006640 Switch I region; other site 688245006641 G2 box; other site 688245006642 G3 box; other site 688245006643 Switch II region; other site 688245006644 G4 box; other site 688245006645 G5 box; other site 688245006646 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 688245006647 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 688245006648 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 688245006649 ligand-binding site [chemical binding]; other site 688245006650 Winged helix-turn helix; Region: HTH_29; pfam13551 688245006651 Homeodomain-like domain; Region: HTH_23; pfam13384 688245006652 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 688245006653 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 688245006654 Active Sites [active] 688245006655 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 688245006656 active site 688245006657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245006658 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245006659 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245006660 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 688245006661 putative effector binding pocket; other site 688245006662 putative dimerization interface [polypeptide binding]; other site 688245006663 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 688245006664 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 688245006665 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 688245006666 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 688245006667 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 688245006668 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 688245006669 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 688245006670 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 688245006671 DNA polymerase type-B family; Region: POLBc; smart00486 688245006672 active site 688245006673 catalytic site [active] 688245006674 substrate binding site [chemical binding]; other site 688245006675 DNA polymerase family B; Region: DNA_pol_B; pfam00136 688245006676 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 688245006677 active site 688245006678 metal-binding site 688245006679 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245006680 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245006681 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 688245006682 dimerization interface [polypeptide binding]; other site 688245006683 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245006684 hypothetical protein; Provisional; Region: PRK06126 688245006685 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245006686 allantoate amidohydrolase; Reviewed; Region: PRK12890 688245006687 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 688245006688 active site 688245006689 metal binding site [ion binding]; metal-binding site 688245006690 dimer interface [polypeptide binding]; other site 688245006691 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 688245006692 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 688245006693 active site 688245006694 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245006695 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245006696 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 688245006697 dimerization interface [polypeptide binding]; other site 688245006698 Predicted transporter component [General function prediction only]; Region: COG2391 688245006699 Sulphur transport; Region: Sulf_transp; pfam04143 688245006700 Predicted transporter component [General function prediction only]; Region: COG2391 688245006701 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 688245006702 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 688245006703 dimerization interface [polypeptide binding]; other site 688245006704 putative DNA binding site [nucleotide binding]; other site 688245006705 putative Zn2+ binding site [ion binding]; other site 688245006706 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 688245006707 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 688245006708 Alkyl sulfatase dimerization; Region: Alkyl_sulf_dimr; pfam14863 688245006709 Uncharacterized conserved protein [Function unknown]; Region: COG5361 688245006710 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 688245006711 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 688245006712 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 688245006713 Uncharacterized conserved protein [Function unknown]; Region: COG5361 688245006714 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 688245006715 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 688245006716 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 688245006717 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 688245006718 Walker A/P-loop; other site 688245006719 ATP binding site [chemical binding]; other site 688245006720 Q-loop/lid; other site 688245006721 ABC transporter signature motif; other site 688245006722 Walker B; other site 688245006723 D-loop; other site 688245006724 H-loop/switch region; other site 688245006725 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 688245006726 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 688245006727 dimer interface [polypeptide binding]; other site 688245006728 conserved gate region; other site 688245006729 putative PBP binding loops; other site 688245006730 ABC-ATPase subunit interface; other site 688245006731 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 688245006732 generic binding surface I; other site 688245006733 generic binding surface II; other site 688245006734 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 688245006735 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 688245006736 FMN binding site [chemical binding]; other site 688245006737 dimer interface [polypeptide binding]; other site 688245006738 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 688245006739 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 688245006740 active site 688245006741 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 688245006742 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 688245006743 acyl-activating enzyme (AAE) consensus motif; other site 688245006744 AMP binding site [chemical binding]; other site 688245006745 active site 688245006746 CoA binding site [chemical binding]; other site 688245006747 BioY family; Region: BioY; pfam02632 688245006748 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 688245006749 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 688245006750 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 688245006751 Walker A/P-loop; other site 688245006752 ATP binding site [chemical binding]; other site 688245006753 Q-loop/lid; other site 688245006754 ABC transporter signature motif; other site 688245006755 Walker B; other site 688245006756 D-loop; other site 688245006757 H-loop/switch region; other site 688245006758 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 688245006759 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 688245006760 N-terminal plug; other site 688245006761 ligand-binding site [chemical binding]; other site 688245006762 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 688245006763 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 688245006764 putative catalytic cysteine [active] 688245006765 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 688245006766 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245006767 Walker A/P-loop; other site 688245006768 ATP binding site [chemical binding]; other site 688245006769 Q-loop/lid; other site 688245006770 ABC transporter signature motif; other site 688245006771 Walker B; other site 688245006772 D-loop; other site 688245006773 H-loop/switch region; other site 688245006774 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 688245006775 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 688245006776 dimer interface [polypeptide binding]; other site 688245006777 conserved gate region; other site 688245006778 putative PBP binding loops; other site 688245006779 ABC-ATPase subunit interface; other site 688245006780 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 688245006781 NMT1/THI5 like; Region: NMT1; pfam09084 688245006782 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08642 688245006783 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245006784 NAD(P) binding site [chemical binding]; other site 688245006785 active site 688245006786 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 688245006787 LysR family transcriptional regulator; Provisional; Region: PRK14997 688245006788 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245006789 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 688245006790 putative effector binding pocket; other site 688245006791 putative dimerization interface [polypeptide binding]; other site 688245006792 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 688245006793 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 688245006794 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 688245006795 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 688245006796 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 688245006797 dimer interface [polypeptide binding]; other site 688245006798 conserved gate region; other site 688245006799 putative PBP binding loops; other site 688245006800 ABC-ATPase subunit interface; other site 688245006801 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 688245006802 dimer interface [polypeptide binding]; other site 688245006803 conserved gate region; other site 688245006804 putative PBP binding loops; other site 688245006805 ABC-ATPase subunit interface; other site 688245006806 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 688245006807 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 688245006808 Walker A/P-loop; other site 688245006809 ATP binding site [chemical binding]; other site 688245006810 Q-loop/lid; other site 688245006811 ABC transporter signature motif; other site 688245006812 Walker B; other site 688245006813 D-loop; other site 688245006814 H-loop/switch region; other site 688245006815 TOBE-like domain; Region: TOBE_3; pfam12857 688245006816 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 688245006817 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 688245006818 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 688245006819 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 688245006820 putative N-terminal domain interface [polypeptide binding]; other site 688245006821 putative dimer interface [polypeptide binding]; other site 688245006822 putative substrate binding pocket (H-site) [chemical binding]; other site 688245006823 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 688245006824 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245006825 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 688245006826 dimerization interface [polypeptide binding]; other site 688245006827 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl19191 688245006828 RNA polymerase sigma factor; Reviewed; Region: PRK12527 688245006829 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 688245006830 DNA binding residues [nucleotide binding] 688245006831 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 688245006832 FecR protein; Region: FecR; pfam04773 688245006833 Secretin and TonB N terminus short domain; Region: STN; smart00965 688245006834 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 688245006835 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 688245006836 N-terminal plug; other site 688245006837 ligand-binding site [chemical binding]; other site 688245006838 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 688245006839 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 688245006840 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 688245006841 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 688245006842 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 688245006843 putative ion selectivity filter; other site 688245006844 putative pore gating glutamate residue; other site 688245006845 putative H+/Cl- coupling transport residue; other site 688245006846 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; cl17426 688245006847 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 688245006848 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 688245006849 active site 688245006850 dimer interface [polypeptide binding]; other site 688245006851 effector binding site; other site 688245006852 2-isopropylmalate synthase; Validated; Region: PRK03739 688245006853 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 688245006854 active site 688245006855 catalytic residues [active] 688245006856 metal binding site [ion binding]; metal-binding site 688245006857 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 688245006858 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 688245006859 Helix-turn-helix domain; Region: HTH_18; pfam12833 688245006860 N-acetylglutamate synthase; Validated; Region: PRK05279 688245006861 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 688245006862 putative feedback inhibition sensing region; other site 688245006863 putative nucleotide binding site [chemical binding]; other site 688245006864 putative substrate binding site [chemical binding]; other site 688245006865 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245006866 Coenzyme A binding pocket [chemical binding]; other site 688245006867 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 688245006868 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 688245006869 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 688245006870 ATP binding site [chemical binding]; other site 688245006871 Walker A motif; other site 688245006872 hexamer interface [polypeptide binding]; other site 688245006873 Walker B motif; other site 688245006874 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 688245006875 active site 688245006876 phosphorylation site [posttranslational modification] 688245006877 intermolecular recognition site; other site 688245006878 dimerization interface [polypeptide binding]; other site 688245006879 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 688245006880 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 688245006881 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 688245006882 TadE-like protein; Region: TadE; pfam07811 688245006883 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 688245006884 TadE-like protein; Region: TadE; pfam07811 688245006885 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 688245006886 Flp/Fap pilin component; Region: Flp_Fap; cl01585 688245006887 Flp/Fap pilin component; Region: Flp_Fap; cl01585 688245006888 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 688245006889 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 688245006890 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 688245006891 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 688245006892 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 688245006893 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 688245006894 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 688245006895 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245006896 putative substrate translocation pore; other site 688245006897 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 688245006898 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 688245006899 N-terminal plug; other site 688245006900 ligand-binding site [chemical binding]; other site 688245006901 enterobactin/ferric enterobactin esterase; Provisional; Region: PRK10439 688245006902 Domain of unknown function (DUF3327); Region: DUF3327; pfam11806 688245006903 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 688245006904 Double zinc ribbon; Region: DZR; pfam12773 688245006905 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 688245006906 Predicted membrane protein [Function unknown]; Region: COG5373 688245006907 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 688245006908 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 688245006909 active site 688245006910 metal binding site [ion binding]; metal-binding site 688245006911 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 688245006912 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 688245006913 ATP binding site [chemical binding]; other site 688245006914 putative Mg++ binding site [ion binding]; other site 688245006915 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 688245006916 nucleotide binding region [chemical binding]; other site 688245006917 ATP-binding site [chemical binding]; other site 688245006918 Helicase associated domain (HA2); Region: HA2; pfam04408 688245006919 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 688245006920 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 688245006921 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245006922 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245006923 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 688245006924 putative effector binding pocket; other site 688245006925 putative dimerization interface [polypeptide binding]; other site 688245006926 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 688245006927 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 688245006928 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 688245006929 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 688245006930 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245006931 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 688245006932 MMPL family; Region: MMPL; cl14618 688245006933 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 688245006934 Outer membrane efflux protein; Region: OEP; pfam02321 688245006935 Outer membrane efflux protein; Region: OEP; pfam02321 688245006936 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 688245006937 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 688245006938 Beta-Casp domain; Region: Beta-Casp; smart01027 688245006939 RNA-metabolizing metallo-beta-lactamase; Region: RMMBL; pfam07521 688245006940 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 688245006941 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 688245006942 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 688245006943 acyl-activating enzyme (AAE) consensus motif; other site 688245006944 putative AMP binding site [chemical binding]; other site 688245006945 putative active site [active] 688245006946 putative CoA binding site [chemical binding]; other site 688245006947 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 688245006948 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 688245006949 G1 box; other site 688245006950 putative GEF interaction site [polypeptide binding]; other site 688245006951 GTP/Mg2+ binding site [chemical binding]; other site 688245006952 Switch I region; other site 688245006953 G2 box; other site 688245006954 G3 box; other site 688245006955 Switch II region; other site 688245006956 G4 box; other site 688245006957 G5 box; other site 688245006958 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 688245006959 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 688245006960 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 688245006961 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 688245006962 selenocysteine synthase; Provisional; Region: PRK04311 688245006963 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 688245006964 L-seryl-tRNA selenium transferase; Region: SelA; pfam03841 688245006965 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 688245006966 catalytic residue [active] 688245006967 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 688245006968 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 688245006969 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 688245006970 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 688245006971 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 688245006972 Molybdopterin-Binding (MopB) 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- and...; Region: Molybdopterin-Binding; cl09928 688245006973 molybdopterin cofactor binding site; other site 688245006974 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 688245006975 molybdopterin cofactor binding site; other site 688245006976 Molybdopterin-Binding (MopB) 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- and...; Region: Molybdopterin-Binding; cl09928 688245006977 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 688245006978 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 688245006979 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 688245006980 TPP-binding site [chemical binding]; other site 688245006981 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 688245006982 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 688245006983 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 688245006984 E3 interaction surface; other site 688245006985 lipoyl attachment site [posttranslational modification]; other site 688245006986 e3 binding domain; Region: E3_binding; pfam02817 688245006987 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 688245006988 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 688245006989 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245006990 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 688245006991 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 688245006992 Predicted ATPase [General function prediction only]; Region: COG1485 688245006993 MAEBL; Provisional; Region: PTZ00121 688245006994 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 688245006995 active site 688245006996 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 688245006997 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cd09708 688245006998 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 688245006999 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 688245007000 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 688245007001 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 688245007002 putative active site [active] 688245007003 putative PHP Thumb interface [polypeptide binding]; other site 688245007004 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 688245007005 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 688245007006 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 688245007007 generic binding surface II; other site 688245007008 generic binding surface I; other site 688245007009 Uncharacterized conserved protein [Function unknown]; Region: COG2127 688245007010 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 688245007011 Clp amino terminal domain; Region: Clp_N; pfam02861 688245007012 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 688245007013 Walker A motif; other site 688245007014 ATP binding site [chemical binding]; other site 688245007015 Walker B motif; other site 688245007016 arginine finger; other site 688245007017 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 688245007018 Walker A motif; other site 688245007019 ATP binding site [chemical binding]; other site 688245007020 Walker B motif; other site 688245007021 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 688245007022 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 688245007023 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 688245007024 active site 688245007025 phosphorylation site [posttranslational modification] 688245007026 intermolecular recognition site; other site 688245007027 dimerization interface [polypeptide binding]; other site 688245007028 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 688245007029 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 688245007030 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 688245007031 dimer interface [polypeptide binding]; other site 688245007032 phosphorylation site [posttranslational modification] 688245007033 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 688245007034 ATP binding site [chemical binding]; other site 688245007035 Mg2+ binding site [ion binding]; other site 688245007036 G-X-G motif; other site 688245007037 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 688245007038 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 688245007039 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 688245007040 Subunit I/III interface [polypeptide binding]; other site 688245007041 Subunit III/IV interface [polypeptide binding]; other site 688245007042 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 688245007043 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 688245007044 D-pathway; other site 688245007045 Putative ubiquinol binding site [chemical binding]; other site 688245007046 Low-spin heme (heme b) binding site [chemical binding]; other site 688245007047 Putative water exit pathway; other site 688245007048 Binuclear center (heme o3/CuB) [ion binding]; other site 688245007049 K-pathway; other site 688245007050 Putative proton exit pathway; other site 688245007051 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 688245007052 The cupredoxin domain of Ubiquinol oxidase subunit II; Region: CuRO_UO_II; cd04212 688245007053 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 688245007054 metabolite-proton symporter; Region: 2A0106; TIGR00883 688245007055 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 688245007056 putative substrate translocation pore; other site 688245007057 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245007058 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245007059 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245007060 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 688245007061 putative dimerization interface [polypeptide binding]; other site 688245007062 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 688245007063 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 688245007064 Bacterial transcriptional regulator; Region: IclR; pfam01614 688245007065 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 688245007066 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 688245007067 2OG-Fe dioxygenase; Region: 2OG-Fe_Oxy_2; pfam10014 688245007068 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 688245007069 Ligand Binding Site [chemical binding]; other site 688245007070 Hemerythrin; Region: Hemerythrin; cd12107 688245007071 Fe binding site [ion binding]; other site 688245007072 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245007073 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 688245007074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245007075 NAD(P) binding site [chemical binding]; other site 688245007076 active site 688245007077 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 688245007078 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 688245007079 Q-loop/lid; other site 688245007080 ABC transporter signature motif; other site 688245007081 Walker B; other site 688245007082 D-loop; other site 688245007083 H-loop/switch region; other site 688245007084 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 688245007085 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 688245007086 Walker A/P-loop; other site 688245007087 ATP binding site [chemical binding]; other site 688245007088 Q-loop/lid; other site 688245007089 ABC transporter signature motif; other site 688245007090 Walker B; other site 688245007091 D-loop; other site 688245007092 H-loop/switch region; other site 688245007093 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 688245007094 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 688245007095 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 688245007096 TM-ABC transporter signature motif; other site 688245007097 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 688245007098 TM-ABC transporter signature motif; other site 688245007099 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 688245007100 dimerization interface [polypeptide binding]; other site 688245007101 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 688245007102 ligand binding site [chemical binding]; other site 688245007103 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 688245007104 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 688245007105 active site 688245007106 PAS domain; Region: PAS_8; pfam13188 688245007107 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 688245007108 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 688245007109 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 688245007110 putative active site [active] 688245007111 heme pocket [chemical binding]; other site 688245007112 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 688245007113 dimer interface [polypeptide binding]; other site 688245007114 phosphorylation site [posttranslational modification] 688245007115 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 688245007116 ATP binding site [chemical binding]; other site 688245007117 Mg2+ binding site [ion binding]; other site 688245007118 G-X-G motif; other site 688245007119 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 688245007120 active site 688245007121 phosphorylation site [posttranslational modification] 688245007122 intermolecular recognition site; other site 688245007123 dimerization interface [polypeptide binding]; other site 688245007124 glycine dehydrogenase; Provisional; Region: PRK05367 688245007125 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 688245007126 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 688245007127 catalytic residue [active] 688245007128 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 688245007129 tetramer interface [polypeptide binding]; other site 688245007130 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245007131 catalytic residue [active] 688245007132 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4884 688245007133 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 688245007134 lipoyl attachment site [posttranslational modification]; other site 688245007135 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 688245007136 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 688245007137 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 688245007138 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; cl10048 688245007139 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 688245007140 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 688245007141 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 688245007142 putative substrate translocation pore; other site 688245007143 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 688245007144 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 688245007145 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245007146 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 688245007147 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 688245007148 Outer membrane efflux protein; Region: OEP; pfam02321 688245007149 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245007150 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 688245007151 Predicted integral membrane protein [Function unknown]; Region: COG5615 688245007152 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 688245007153 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 688245007154 dimer interface [polypeptide binding]; other site 688245007155 active site 688245007156 heme binding site [chemical binding]; other site 688245007157 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 688245007158 PAS domain; Region: PAS_9; pfam13426 688245007159 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 688245007160 putative active site [active] 688245007161 heme pocket [chemical binding]; other site 688245007162 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 688245007163 DNA binding residues [nucleotide binding] 688245007164 dimerization interface [polypeptide binding]; other site 688245007165 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 688245007166 Domain of unknown function (DUF3806); Region: DUF3806; pfam12713 688245007167 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 688245007168 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 688245007169 Zn2+ binding site [ion binding]; other site 688245007170 Mg2+ binding site [ion binding]; other site 688245007171 Uncharacterized conserved protein [Function unknown]; Region: COG4544 688245007172 Y-family of DNA polymerases; Region: PolY; cl12025 688245007173 DNA binding site [nucleotide binding] 688245007174 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 688245007175 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 688245007176 putative active site [active] 688245007177 putative PHP Thumb interface [polypeptide binding]; other site 688245007178 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 688245007179 Helix-hairpin-helix motif; Region: HHH_6; pfam14579 688245007180 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 688245007181 generic binding surface II; other site 688245007182 generic binding surface I; other site 688245007183 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 688245007184 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245007185 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 688245007186 dimerization interface [polypeptide binding]; other site 688245007187 substrate binding pocket [chemical binding]; other site 688245007188 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245007189 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 688245007190 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 688245007191 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 688245007192 active site 688245007193 catalytic site [active] 688245007194 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245007195 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245007196 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245007197 active site 688245007198 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245007199 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245007200 enoyl-CoA hydratase; Provisional; Region: PRK09245 688245007201 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 688245007202 substrate binding site [chemical binding]; other site 688245007203 oxyanion hole (OAH) forming residues; other site 688245007204 trimer interface [polypeptide binding]; other site 688245007205 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 688245007206 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 688245007207 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 688245007208 dimerization interface [polypeptide binding]; other site 688245007209 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 688245007210 dimer interface [polypeptide binding]; other site 688245007211 putative CheW interface [polypeptide binding]; other site 688245007212 Amidinotransferase; Region: Amidinotransf; cl19186 688245007213 Amidinotransferase; Region: Amidinotransf; cl19186 688245007214 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245007215 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245007216 LysR substrate binding domain; Region: LysR_substrate; pfam03466 688245007217 dimerization interface [polypeptide binding]; other site 688245007218 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 688245007219 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 688245007220 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 688245007221 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245007222 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245007223 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 688245007224 dimerization interface [polypeptide binding]; other site 688245007225 Arylsulfotransferase (ASST); Region: Arylsulfotrans; cl19972 688245007226 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245007227 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 688245007228 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 688245007229 active site 688245007230 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 688245007231 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 688245007232 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 688245007233 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 688245007234 putative substrate translocation pore; other site 688245007235 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 688245007236 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 688245007237 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245007238 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 688245007239 Outer membrane efflux protein; Region: OEP; pfam02321 688245007240 Outer membrane efflux protein; Region: OEP; pfam02321 688245007241 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; cl00364 688245007242 L11 interface [polypeptide binding]; other site 688245007243 putative EF-Tu interaction site [polypeptide binding]; other site 688245007244 putative EF-G interaction site [polypeptide binding]; other site 688245007245 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; cl00364 688245007246 L11 interface [polypeptide binding]; other site 688245007247 putative EF-Tu interaction site [polypeptide binding]; other site 688245007248 putative EF-G interaction site [polypeptide binding]; other site 688245007249 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 688245007250 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 688245007251 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 688245007252 catalytic triad [active] 688245007253 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 688245007254 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 688245007255 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 688245007256 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 688245007257 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 688245007258 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; cl17251 688245007259 DEAD_2; Region: DEAD_2; pfam06733 688245007260 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 688245007261 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 688245007262 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 688245007263 homodimer interaction site [polypeptide binding]; other site 688245007264 cofactor binding site; other site 688245007265 TOBE domain; Region: TOBE; cl01440 688245007266 TOBE domain; Region: TOBE; cl01440 688245007267 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 688245007268 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245007269 Coenzyme A binding pocket [chemical binding]; other site 688245007270 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 688245007271 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 688245007272 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 688245007273 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 688245007274 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 688245007275 ABC transporter; Region: ABC_tran_2; pfam12848 688245007276 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 688245007277 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245007278 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245007279 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 688245007280 dimerization interface [polypeptide binding]; other site 688245007281 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 688245007282 active site 688245007283 metal binding site [ion binding]; metal-binding site 688245007284 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 688245007285 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 688245007286 tetrathionate reductase subunit A; Provisional; Region: PRK14991 688245007287 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 688245007288 putative [Fe4-S4] binding site [ion binding]; other site 688245007289 putative molybdopterin cofactor binding site [chemical binding]; other site 688245007290 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 688245007291 putative molybdopterin cofactor binding site; other site 688245007292 tetrathionate reductase subunit C; Provisional; Region: PRK14992 688245007293 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 688245007294 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 688245007295 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 688245007296 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 688245007297 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 688245007298 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 688245007299 quinone interaction residues [chemical binding]; other site 688245007300 active site 688245007301 catalytic residues [active] 688245007302 FMN binding site [chemical binding]; other site 688245007303 substrate binding site [chemical binding]; other site 688245007304 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 688245007305 tetramer (dimer of dimers) interface [polypeptide binding]; other site 688245007306 active site 688245007307 dimer interface [polypeptide binding]; other site 688245007308 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 688245007309 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 688245007310 catalytic residues [active] 688245007311 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 688245007312 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 688245007313 active site 688245007314 Zn binding site [ion binding]; other site 688245007315 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 688245007316 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 688245007317 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 688245007318 homodimer interface [polypeptide binding]; other site 688245007319 NADP binding site [chemical binding]; other site 688245007320 substrate binding site [chemical binding]; other site 688245007321 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 688245007322 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 688245007323 active site 688245007324 phosphorylation site [posttranslational modification] 688245007325 intermolecular recognition site; other site 688245007326 dimerization interface [polypeptide binding]; other site 688245007327 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 688245007328 DNA binding residues [nucleotide binding] 688245007329 dimerization interface [polypeptide binding]; other site 688245007330 PAS domain S-box; Region: sensory_box; TIGR00229 688245007331 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 688245007332 putative active site [active] 688245007333 heme pocket [chemical binding]; other site 688245007334 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 688245007335 dimer interface [polypeptide binding]; other site 688245007336 phosphorylation site [posttranslational modification] 688245007337 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 688245007338 ATP binding site [chemical binding]; other site 688245007339 Mg2+ binding site [ion binding]; other site 688245007340 G-X-G motif; other site 688245007341 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 688245007342 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 688245007343 dimer interface [polypeptide binding]; other site 688245007344 TPP-binding site [chemical binding]; other site 688245007345 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 688245007346 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 688245007347 E3 interaction surface; other site 688245007348 lipoyl attachment site [posttranslational modification]; other site 688245007349 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 688245007350 E3 interaction surface; other site 688245007351 lipoyl attachment site [posttranslational modification]; other site 688245007352 e3 binding domain; Region: E3_binding; pfam02817 688245007353 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 688245007354 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 688245007355 E3 interaction surface; other site 688245007356 lipoyl attachment site [posttranslational modification]; other site 688245007357 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 688245007358 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 688245007359 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 688245007360 non-specific DNA binding site [nucleotide binding]; other site 688245007361 salt bridge; other site 688245007362 sequence-specific DNA binding site [nucleotide binding]; other site 688245007363 HipA N-terminal domain; Region: couple_hipA; TIGR03071 688245007364 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 688245007365 HipA-like N-terminal domain; Region: HipA_N; pfam07805 688245007366 HipA-like C-terminal domain; Region: HipA_C; pfam07804 688245007367 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 688245007368 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 688245007369 D-galactonate transporter; Region: 2A0114; TIGR00893 688245007370 putative substrate translocation pore; other site 688245007371 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 688245007372 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 688245007373 PhnA protein; Region: PhnA; pfam03831 688245007374 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 688245007375 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 688245007376 metal ion-dependent adhesion site (MIDAS); other site 688245007377 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 688245007378 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 688245007379 Walker A motif; other site 688245007380 ATP binding site [chemical binding]; other site 688245007381 Walker B motif; other site 688245007382 arginine finger; other site 688245007383 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245007384 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245007385 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 688245007386 dimerization interface [polypeptide binding]; other site 688245007387 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 688245007388 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 688245007389 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 688245007390 metal binding site [ion binding]; metal-binding site 688245007391 putative dimer interface [polypeptide binding]; other site 688245007392 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 688245007393 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 688245007394 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245007395 metal binding site [ion binding]; metal-binding site 688245007396 active site 688245007397 I-site; other site 688245007398 Protein of unknown function (DUF2167); Region: DUF2167; cl01938 688245007399 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 688245007400 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 688245007401 active site 688245007402 catalytic tetrad [active] 688245007403 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 688245007404 putative substrate translocation pore; other site 688245007405 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245007406 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 688245007407 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 688245007408 active site 688245007409 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 688245007410 Predicted membrane protein [Function unknown]; Region: COG4129 688245007411 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 688245007412 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 688245007413 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 688245007414 EVE domain; Region: EVE; cl00728 688245007415 Predicted membrane protein [Function unknown]; Region: COG2261 688245007416 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 688245007417 NlpC/P60 family; Region: NLPC_P60; pfam00877 688245007418 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 688245007419 catalytic triad [active] 688245007420 conserved cis-peptide bond; other site 688245007421 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 688245007422 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 688245007423 acyl-activating enzyme (AAE) consensus motif; other site 688245007424 AMP binding site [chemical binding]; other site 688245007425 active site 688245007426 CoA binding site [chemical binding]; other site 688245007427 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 688245007428 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 688245007429 active site 688245007430 substrate binding site [chemical binding]; other site 688245007431 metal binding site [ion binding]; metal-binding site 688245007432 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 688245007433 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 688245007434 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 688245007435 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 688245007436 Outer membrane efflux protein; Region: OEP; pfam02321 688245007437 Outer membrane efflux protein; Region: OEP; pfam02321 688245007438 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 688245007439 active site residue [active] 688245007440 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 688245007441 S-adenosylmethionine binding site [chemical binding]; other site 688245007442 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 688245007443 MMPL family; Region: MMPL; cl14618 688245007444 MMPL family; Region: MMPL; cl14618 688245007445 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 688245007446 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 688245007447 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245007448 methionine sulfoxide reductase A; Provisional; Region: PRK14054 688245007449 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 688245007450 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 688245007451 N-terminal plug; other site 688245007452 ligand-binding site [chemical binding]; other site 688245007453 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 688245007454 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 688245007455 active site 688245007456 catalytic residues [active] 688245007457 DNA binding site [nucleotide binding] 688245007458 Int/Topo IB signature motif; other site 688245007459 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 688245007460 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 688245007461 Pyridoxine 5'-phosphate oxidase C-terminal dimerization region; Region: PNPOx_C; pfam10590 688245007462 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 688245007463 active site 688245007464 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 688245007465 E-class dimer interface [polypeptide binding]; other site 688245007466 P-class dimer interface [polypeptide binding]; other site 688245007467 active site 688245007468 Cu2+ binding site [ion binding]; other site 688245007469 Zn2+ binding site [ion binding]; other site 688245007470 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 688245007471 putative active site pocket [active] 688245007472 dimerization interface [polypeptide binding]; other site 688245007473 putative catalytic residue [active] 688245007474 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 688245007475 ligand binding site [chemical binding]; other site 688245007476 SnoaL-like domain; Region: SnoaL_4; pfam13577 688245007477 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 688245007478 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 688245007479 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245007480 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 688245007481 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 688245007482 dimer interface [polypeptide binding]; other site 688245007483 acyl-activating enzyme (AAE) consensus motif; other site 688245007484 putative active site [active] 688245007485 AMP binding site [chemical binding]; other site 688245007486 putative CoA binding site [chemical binding]; other site 688245007487 enoyl-CoA hydratase; Provisional; Region: PRK08150 688245007488 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 688245007489 substrate binding site [chemical binding]; other site 688245007490 oxyanion hole (OAH) forming residues; other site 688245007491 trimer interface [polypeptide binding]; other site 688245007492 Protein of unknown function, DUF485; Region: DUF485; pfam04341 688245007493 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 688245007494 Na binding site [ion binding]; other site 688245007495 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 688245007496 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245007497 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 688245007498 tetrameric interface [polypeptide binding]; other site 688245007499 NAD binding site [chemical binding]; other site 688245007500 catalytic residues [active] 688245007501 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 688245007502 dimer interface [polypeptide binding]; other site 688245007503 active site 688245007504 glutathione binding site [chemical binding]; other site 688245007505 putative replication initiation protein; Region: PHA00330 688245007506 Protein of unknown function (DUF2523); Region: DUF2523; cl10291 688245007507 Zonular occludens toxin (Zot); Region: Zot; cl17485 688245007508 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245007509 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 688245007510 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245007511 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245007512 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 688245007513 putative dimerization interface [polypeptide binding]; other site 688245007514 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 688245007515 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245007516 homodimer interface [polypeptide binding]; other site 688245007517 catalytic residue [active] 688245007518 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 688245007519 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 688245007520 TrkA-C domain; Region: TrkA_C; pfam02080 688245007521 TrkA-C domain; Region: TrkA_C; pfam02080 688245007522 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 688245007523 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 688245007524 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 688245007525 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 688245007526 active site 688245007527 DNA binding site [nucleotide binding] 688245007528 Int/Topo IB signature motif; other site 688245007529 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl19094 688245007530 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 688245007531 substrate binding pocket [chemical binding]; other site 688245007532 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 688245007533 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 688245007534 dimer interface [polypeptide binding]; other site 688245007535 substrate binding site [chemical binding]; other site 688245007536 metal binding site [ion binding]; metal-binding site 688245007537 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 688245007538 putative active site [active] 688245007539 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 688245007540 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 688245007541 ATP-grasp domain; Region: ATP-grasp_4; cl17255 688245007542 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 688245007543 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 688245007544 carboxyltransferase (CT) interaction site; other site 688245007545 biotinylation site [posttranslational modification]; other site 688245007546 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 688245007547 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 688245007548 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 688245007549 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 688245007550 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 688245007551 Walker A; other site 688245007552 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 688245007553 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 688245007554 active site 688245007555 substrate binding site [chemical binding]; other site 688245007556 coenzyme B12 binding site [chemical binding]; other site 688245007557 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 688245007558 B12 binding site [chemical binding]; other site 688245007559 cobalt ligand [ion binding]; other site 688245007560 Transcriptional regulators [Transcription]; Region: GntR; COG1802 688245007561 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245007562 DNA-binding site [nucleotide binding]; DNA binding site 688245007563 FCD domain; Region: FCD; pfam07729 688245007564 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 688245007565 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 688245007566 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 688245007567 PAS domain S-box; Region: sensory_box; TIGR00229 688245007568 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 688245007569 putative active site [active] 688245007570 heme pocket [chemical binding]; other site 688245007571 PAS domain; Region: PAS_9; pfam13426 688245007572 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 688245007573 putative active site [active] 688245007574 heme pocket [chemical binding]; other site 688245007575 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 688245007576 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 688245007577 acyl-activating enzyme (AAE) consensus motif; other site 688245007578 putative AMP binding site [chemical binding]; other site 688245007579 putative active site [active] 688245007580 putative CoA binding site [chemical binding]; other site 688245007581 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 688245007582 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 688245007583 Cache domain; Region: Cache_1; pfam02743 688245007584 IS2 transposase TnpB; Reviewed; Region: PRK09409 688245007585 HTH-like domain; Region: HTH_21; pfam13276 688245007586 Integrase core domain; Region: rve; pfam00665 688245007587 Integrase core domain; Region: rve_3; pfam13683 688245007588 Transposase; Region: HTH_Tnp_1; cl17663 688245007589 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 688245007590 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245007591 metal binding site [ion binding]; metal-binding site 688245007592 active site 688245007593 I-site; other site 688245007594 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 688245007595 Dihydrouridine synthase (Dus); Region: Dus; pfam01207 688245007596 FMN binding site [chemical binding]; other site 688245007597 active site 688245007598 catalytic residues [active] 688245007599 substrate binding site [chemical binding]; other site 688245007600 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 688245007601 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl19415 688245007602 ferredoxin; Provisional; Region: PRK08764 688245007603 Putative Fe-S cluster; Region: FeS; cl17515 688245007604 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; cl19102 688245007605 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 688245007606 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 688245007607 dimer interface [polypeptide binding]; other site 688245007608 putative CheW interface [polypeptide binding]; other site 688245007609 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 688245007610 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 688245007611 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245007612 homodimer interface [polypeptide binding]; other site 688245007613 catalytic residue [active] 688245007614 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 688245007615 Tetrahydrodipicolinate N-succinyltransferase N-terminal; Region: THDPS_N_2; pfam14805 688245007616 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 688245007617 trimer interface [polypeptide binding]; other site 688245007618 active site 688245007619 substrate binding site [chemical binding]; other site 688245007620 CoA binding site [chemical binding]; other site 688245007621 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 688245007622 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 688245007623 Walker A motif; other site 688245007624 ATP binding site [chemical binding]; other site 688245007625 Walker B motif; other site 688245007626 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 688245007627 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 688245007628 metal binding site [ion binding]; metal-binding site 688245007629 dimer interface [polypeptide binding]; other site 688245007630 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK11805 688245007631 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 688245007632 S-adenosylmethionine binding site [chemical binding]; other site 688245007633 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 688245007634 dinuclear metal binding motif [ion binding]; other site 688245007635 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 688245007636 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 688245007637 ABC transporter; Region: ABC_tran_2; pfam12848 688245007638 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 688245007639 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 688245007640 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 688245007641 NAD(P) binding site [chemical binding]; other site 688245007642 homotetramer interface [polypeptide binding]; other site 688245007643 homodimer interface [polypeptide binding]; other site 688245007644 active site 688245007645 putative acyltransferase; Provisional; Region: PRK05790 688245007646 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 688245007647 dimer interface [polypeptide binding]; other site 688245007648 active site 688245007649 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 688245007650 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 688245007651 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 688245007652 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 688245007653 maleylacetoacetate isomerase; Region: maiA; TIGR01262 688245007654 C-terminal domain interface [polypeptide binding]; other site 688245007655 GSH binding site (G-site) [chemical binding]; other site 688245007656 putative dimer interface [polypeptide binding]; other site 688245007657 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 688245007658 dimer interface [polypeptide binding]; other site 688245007659 N-terminal domain interface [polypeptide binding]; other site 688245007660 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 688245007661 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 688245007662 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 688245007663 Nudix N-terminal; Region: Nudix_N_2; pfam14803 688245007664 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 688245007665 nudix motif; other site 688245007666 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 688245007667 PAS domain; Region: PAS_9; pfam13426 688245007668 putative active site [active] 688245007669 heme pocket [chemical binding]; other site 688245007670 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245007671 metal binding site [ion binding]; metal-binding site 688245007672 active site 688245007673 I-site; other site 688245007674 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 688245007675 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 688245007676 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 688245007677 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 688245007678 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245007679 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 688245007680 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 688245007681 DNA binding residues [nucleotide binding] 688245007682 dimerization interface [polypeptide binding]; other site 688245007683 Uncharacterized conserved protein [Function unknown]; Region: COG1739 688245007684 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 688245007685 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 688245007686 Secretory lipase; Region: LIP; pfam03583 688245007687 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 688245007688 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245007689 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 688245007690 dimerization interface [polypeptide binding]; other site 688245007691 LysE type translocator; Region: LysE; cl00565 688245007692 Uncharacterized conserved protein [Function unknown]; Region: COG2128 688245007693 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 688245007694 YceI-like domain; Region: YceI; pfam04264 688245007695 YceI-like domain; Region: YceI; pfam04264 688245007696 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 688245007697 hydrophobic ligand binding site; other site 688245007698 YcxB-like protein; Region: YcxB; pfam14317 688245007699 Uncharacterized conserved protein [Function unknown]; Region: RtcB; COG1690 688245007700 tRNA-splicing ligase RtcB; Region: RtcB; pfam01139 688245007701 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 688245007702 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 688245007703 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245007704 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 688245007705 NAD(P) binding site [chemical binding]; other site 688245007706 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 688245007707 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 688245007708 active site 688245007709 phosphorylation site [posttranslational modification] 688245007710 intermolecular recognition site; other site 688245007711 dimerization interface [polypeptide binding]; other site 688245007712 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 688245007713 Walker A motif; other site 688245007714 ATP binding site [chemical binding]; other site 688245007715 Walker B motif; other site 688245007716 arginine finger; other site 688245007717 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 688245007718 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 688245007719 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 688245007720 dimer interface [polypeptide binding]; other site 688245007721 phosphorylation site [posttranslational modification] 688245007722 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 688245007723 ATP binding site [chemical binding]; other site 688245007724 Mg2+ binding site [ion binding]; other site 688245007725 G-X-G motif; other site 688245007726 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 688245007727 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 688245007728 active site 688245007729 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 688245007730 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245007731 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 688245007732 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 688245007733 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; cl19102 688245007734 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 688245007735 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 688245007736 zinc binding site [ion binding]; other site 688245007737 putative ligand binding site [chemical binding]; other site 688245007738 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; cd06574 688245007739 TM-ABC transporter signature motif; other site 688245007740 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 688245007741 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245007742 Walker A/P-loop; other site 688245007743 ATP binding site [chemical binding]; other site 688245007744 Q-loop/lid; other site 688245007745 ABC transporter signature motif; other site 688245007746 Walker B; other site 688245007747 D-loop; other site 688245007748 H-loop/switch region; other site 688245007749 lysine transporter; Provisional; Region: PRK10836 688245007750 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 688245007751 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 688245007752 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 688245007753 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 688245007754 Sulfate transporter family; Region: Sulfate_transp; cl19250 688245007755 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 688245007756 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245007757 metal binding site [ion binding]; metal-binding site 688245007758 active site 688245007759 I-site; other site 688245007760 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 688245007761 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 688245007762 P-loop; other site 688245007763 rhodanese superfamily protein; Provisional; Region: PRK05320 688245007764 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 688245007765 active site residue [active] 688245007766 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 688245007767 Predicted membrane protein [Function unknown]; Region: COG2259 688245007768 Pirin-related protein [General function prediction only]; Region: COG1741 688245007769 Pirin; Region: Pirin; pfam02678 688245007770 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245007771 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245007772 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 688245007773 dimerization interface [polypeptide binding]; other site 688245007774 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245007775 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 688245007776 active site 688245007777 nucleotide binding site [chemical binding]; other site 688245007778 HIGH motif; other site 688245007779 KMSKS motif; other site 688245007780 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 688245007781 S-adenosylmethionine binding site [chemical binding]; other site 688245007782 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 688245007783 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 688245007784 active site 688245007785 motif 2; other site 688245007786 motif 3; other site 688245007787 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 688245007788 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 688245007789 Domain of unknown function (DUF4259); Region: DUF4259; pfam14078 688245007790 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 688245007791 SmpB-tmRNA interface; other site 688245007792 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 688245007793 putative coenzyme Q binding site [chemical binding]; other site 688245007794 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 688245007795 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 688245007796 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 688245007797 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 688245007798 active site 688245007799 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 688245007800 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 688245007801 putative active site [active] 688245007802 homotetrameric interface [polypeptide binding]; other site 688245007803 metal binding site [ion binding]; metal-binding site 688245007804 GMP synthase; Reviewed; Region: guaA; PRK00074 688245007805 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 688245007806 AMP/PPi binding site [chemical binding]; other site 688245007807 candidate oxyanion hole; other site 688245007808 catalytic triad [active] 688245007809 potential glutamine specificity residues [chemical binding]; other site 688245007810 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 688245007811 ATP Binding subdomain [chemical binding]; other site 688245007812 Ligand Binding sites [chemical binding]; other site 688245007813 Dimerization subdomain; other site 688245007814 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245007815 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245007816 Subunit B of the Class III extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of protocatechuate; Region: PCA_45_Dioxygenase_B; cd07364 688245007817 active site 688245007818 Fe(II) binding site [ion binding]; other site 688245007819 dimer interface [polypeptide binding]; other site 688245007820 tetramer interface [polypeptide binding]; other site 688245007821 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 688245007822 dimer interface [polypeptide binding]; other site 688245007823 tetramer interface [polypeptide binding]; other site 688245007824 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 688245007825 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 688245007826 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 688245007827 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245007828 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 688245007829 dimerization interface [polypeptide binding]; other site 688245007830 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 688245007831 apolar tunnel; other site 688245007832 heme binding site [chemical binding]; other site 688245007833 dimerization interface [polypeptide binding]; other site 688245007834 NnrS protein; Region: NnrS; pfam05940 688245007835 Transcriptional regulator; Region: Rrf2; cl17282 688245007836 Rrf2 family protein; Region: rrf2_super; TIGR00738 688245007837 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 688245007838 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; cd00322 688245007839 FAD binding pocket [chemical binding]; other site 688245007840 conserved FAD binding motif [chemical binding]; other site 688245007841 phosphate binding motif [ion binding]; other site 688245007842 beta-alpha-beta structure motif; other site 688245007843 NAD binding pocket [chemical binding]; other site 688245007844 AAA domain; Region: AAA_23; pfam13476 688245007845 AAA domain; Region: AAA_13; pfam13166 688245007846 Phage portal protein; Region: Phage_portal; cl19194 688245007847 terminase ATPase subunit; Provisional; Region: P; PHA02535 688245007848 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 688245007849 active site 688245007850 DNA binding site [nucleotide binding] 688245007851 Int/Topo IB signature motif; other site 688245007852 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 688245007853 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 688245007854 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 688245007855 synthetase active site [active] 688245007856 NTP binding site [chemical binding]; other site 688245007857 metal binding site [ion binding]; metal-binding site 688245007858 integrase/recombinase; Provisional; Region: PRK15417 688245007859 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 688245007860 Int/Topo IB signature motif; other site 688245007861 TIGR02646 family protein; Region: TIGR02646 688245007862 AAA ATPase domain; Region: AAA_15; pfam13175 688245007863 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 688245007864 Q-loop/lid; other site 688245007865 ABC transporter signature motif; other site 688245007866 Walker B; other site 688245007867 D-loop; other site 688245007868 H-loop/switch region; other site 688245007869 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 688245007870 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 688245007871 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 688245007872 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 688245007873 haemagglutination activity domain; Region: Haemagg_act; pfam05860 688245007874 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 688245007875 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 688245007876 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 688245007877 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 688245007878 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 688245007879 short chain dehydrogenase; Provisional; Region: PRK07063 688245007880 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 688245007881 classical (c) SDRs; Region: SDR_c; cd05233 688245007882 NAD(P) binding site [chemical binding]; other site 688245007883 active site 688245007884 META domain; Region: META; cl01245 688245007885 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 688245007886 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 688245007887 FAD binding pocket [chemical binding]; other site 688245007888 FAD binding motif [chemical binding]; other site 688245007889 phosphate binding motif [ion binding]; other site 688245007890 NAD binding pocket [chemical binding]; other site 688245007891 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 688245007892 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 688245007893 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 688245007894 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 688245007895 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 688245007896 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 688245007897 N-terminal plug; other site 688245007898 ligand-binding site [chemical binding]; other site 688245007899 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 688245007900 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 688245007901 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 688245007902 Walker A motif; other site 688245007903 ATP binding site [chemical binding]; other site 688245007904 Walker B motif; other site 688245007905 arginine finger; other site 688245007906 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 688245007907 non-specific DNA binding site [nucleotide binding]; other site 688245007908 salt bridge; other site 688245007909 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 688245007910 sequence-specific DNA binding site [nucleotide binding]; other site 688245007911 Integrase core domain; Region: rve; pfam00665 688245007912 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 688245007913 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 688245007914 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 688245007915 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 688245007916 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 688245007917 DNA binding residues [nucleotide binding] 688245007918 dimer interface [polypeptide binding]; other site 688245007919 putative metal binding site [ion binding]; other site 688245007920 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 688245007921 metal-binding site [ion binding] 688245007922 Heavy-metal-associated domain; Region: HMA; pfam00403 688245007923 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 688245007924 metal-binding site [ion binding] 688245007925 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 688245007926 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 688245007927 metal-binding site [ion binding] 688245007928 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 688245007929 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 688245007930 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 688245007931 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 688245007932 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 688245007933 Cytochrome c; Region: Cytochrom_C; pfam00034 688245007934 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 688245007935 putative metal dependent hydrolase; Provisional; Region: PRK11598 688245007936 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 688245007937 Sulfatase; Region: Sulfatase; pfam00884 688245007938 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 688245007939 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 688245007940 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 688245007941 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245007942 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 688245007943 Outer membrane efflux protein; Region: OEP; pfam02321 688245007944 Outer membrane efflux protein; Region: OEP; pfam02321 688245007945 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 688245007946 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 688245007947 active site 688245007948 phosphorylation site [posttranslational modification] 688245007949 intermolecular recognition site; other site 688245007950 dimerization interface [polypeptide binding]; other site 688245007951 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 688245007952 DNA binding site [nucleotide binding] 688245007953 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 688245007954 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 688245007955 dimerization interface [polypeptide binding]; other site 688245007956 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 688245007957 dimer interface [polypeptide binding]; other site 688245007958 phosphorylation site [posttranslational modification] 688245007959 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 688245007960 ATP binding site [chemical binding]; other site 688245007961 Mg2+ binding site [ion binding]; other site 688245007962 G-X-G motif; other site 688245007963 HTH-like domain; Region: HTH_21; pfam13276 688245007964 Integrase core domain; Region: rve; pfam00665 688245007965 Integrase core domain; Region: rve_2; pfam13333 688245007966 Domain of unknown function DUF; Region: DUF204; pfam02659 688245007967 Domain of unknown function DUF; Region: DUF204; pfam02659 688245007968 IS2 transposase TnpB; Reviewed; Region: PRK09409 688245007969 HTH-like domain; Region: HTH_21; pfam13276 688245007970 Integrase core domain; Region: rve; pfam00665 688245007971 Integrase core domain; Region: rve_3; pfam13683 688245007972 Transposase; Region: HTH_Tnp_1; cl17663 688245007973 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 688245007974 Integral membrane diacylglycerol kinase; Region: DAGK_IM; cd14264 688245007975 putative active site [active] 688245007976 trimer interface [polypeptide binding]; other site 688245007977 putative active site [active] 688245007978 Zn binding site [ion binding]; other site 688245007979 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 688245007980 active site 688245007981 flagellar basal body rod protein FlgB; Provisional; Region: flgB; cl19173 688245007982 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 688245007983 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 688245007984 Soluble P-type ATPase [General function prediction only]; Region: COG4087 688245007985 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 688245007986 Heavy-metal-associated domain; Region: HMA; pfam00403 688245007987 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 688245007988 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 688245007989 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 688245007990 DNA binding residues [nucleotide binding] 688245007991 dimer interface [polypeptide binding]; other site 688245007992 putative metal binding site [ion binding]; other site 688245007993 Sulfatase; Region: Sulfatase; cl19157 688245007994 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 688245007995 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 688245007996 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 688245007997 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 688245007998 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 688245007999 MMPL family; Region: MMPL; cl14618 688245008000 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 688245008001 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245008002 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 688245008003 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 688245008004 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 688245008005 Outer membrane efflux protein; Region: OEP; pfam02321 688245008006 Restriction endonuclease fold toxin 3; Region: Tox-REase-3; pfam15647 688245008007 Heavy-metal-associated domain; Region: HMA; pfam00403 688245008008 metal-binding site [ion binding] 688245008009 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 688245008010 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 688245008011 dimerization interface [polypeptide binding]; other site 688245008012 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 688245008013 dimer interface [polypeptide binding]; other site 688245008014 phosphorylation site [posttranslational modification] 688245008015 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 688245008016 ATP binding site [chemical binding]; other site 688245008017 Mg2+ binding site [ion binding]; other site 688245008018 G-X-G motif; other site 688245008019 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 688245008020 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 688245008021 active site 688245008022 phosphorylation site [posttranslational modification] 688245008023 intermolecular recognition site; other site 688245008024 dimerization interface [polypeptide binding]; other site 688245008025 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 688245008026 DNA binding site [nucleotide binding] 688245008027 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 688245008028 The first cupredoxin domain of CopA copper resistance protein family; Region: CuRO_1_CopA; cd13848 688245008029 putative Domain 2 interface [polypeptide binding]; other site 688245008030 putative Domain 3 interface [polypeptide binding]; other site 688245008031 trinuclear Cu binding site [ion binding]; other site 688245008032 The second cupredoxin domain of CopA copper resistance protein family; Region: CuRO_2_CopA; cd13874 688245008033 putative Domain 1 interface [polypeptide binding]; other site 688245008034 putative Domain 3 interface [polypeptide binding]; other site 688245008035 Forkhead N-terminal region; Region: Fork_head_N; pfam08430 688245008036 The third cupredoxin domain of CopA copper resistance protein family; Region: CuRO_3_CopA; cd13896 688245008037 putative Domain 2 interface [polypeptide binding]; other site 688245008038 Type 1 (T1) Cu binding site [ion binding]; other site 688245008039 putative Domain 1 interface [polypeptide binding]; other site 688245008040 trinuclear Cu binding site [ion binding]; other site 688245008041 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 688245008042 CopC domain; Region: CopC; pfam04234 688245008043 Putative copper export protein [Inorganic ion transport and metabolism]; Region: PcoD; COG1276 688245008044 YHS domain; Region: YHS; pfam04945 688245008045 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 688245008046 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 688245008047 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 688245008048 motif II; other site 688245008049 Predicted transcriptional regulators [Transcription]; Region: ArsR; COG0640 688245008050 Low molecular weight phosphatase family; Region: LMWPc; cd00115 688245008051 active site 688245008052 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 688245008053 Citrate transporter; Region: CitMHS; pfam03600 688245008054 transmembrane helices; other site 688245008055 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 688245008056 catalytic residues [active] 688245008057 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 688245008058 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245008059 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 688245008060 Ligand Binding Site [chemical binding]; other site 688245008061 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 688245008062 Ligand Binding Site [chemical binding]; other site 688245008063 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 688245008064 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 688245008065 Sulfate transporter family; Region: Sulfate_transp; pfam00916 688245008066 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 688245008067 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 688245008068 multiple promoter invertase; Provisional; Region: mpi; PRK13413 688245008069 catalytic residues [active] 688245008070 catalytic nucleophile [active] 688245008071 Presynaptic Site I dimer interface [polypeptide binding]; other site 688245008072 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 688245008073 Synaptic Flat tetramer interface [polypeptide binding]; other site 688245008074 Synaptic Site I dimer interface [polypeptide binding]; other site 688245008075 DNA binding site [nucleotide binding] 688245008076 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cd00569 688245008077 DNA-binding interface [nucleotide binding]; DNA binding site 688245008078 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 688245008079 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 688245008080 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 688245008081 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 688245008082 Walker A motif; other site 688245008083 ATP binding site [chemical binding]; other site 688245008084 Walker B motif; other site 688245008085 arginine finger; other site 688245008086 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 688245008087 non-specific DNA binding site [nucleotide binding]; other site 688245008088 salt bridge; other site 688245008089 sequence-specific DNA binding site [nucleotide binding]; other site 688245008090 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 688245008091 PAS domain; Region: PAS_9; pfam13426 688245008092 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 688245008093 putative active site [active] 688245008094 heme pocket [chemical binding]; other site 688245008095 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 688245008096 HAMP domain; Region: HAMP; pfam00672 688245008097 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 688245008098 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245008099 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 688245008100 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 688245008101 Sensors of blue-light using FAD; Region: BLUF; cl04855 688245008102 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 688245008103 Immunity protein 7; Region: Imm7; pfam15588 688245008104 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245008105 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245008106 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 688245008107 dimerization interface [polypeptide binding]; other site 688245008108 allantoate amidohydrolase; Reviewed; Region: PRK12890 688245008109 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 688245008110 active site 688245008111 metal binding site [ion binding]; metal-binding site 688245008112 dimer interface [polypeptide binding]; other site 688245008113 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 688245008114 putative ADP-ribose binding site [chemical binding]; other site 688245008115 putative active site [active] 688245008116 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 688245008117 trimer interface [polypeptide binding]; other site 688245008118 eyelet of channel; other site 688245008119 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 688245008120 DinB family; Region: DinB; cl17821 688245008121 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 688245008122 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 688245008123 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245008124 DNA-binding site [nucleotide binding]; DNA binding site 688245008125 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 688245008126 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245008127 homodimer interface [polypeptide binding]; other site 688245008128 catalytic residue [active] 688245008129 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 688245008130 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 688245008131 putative substrate translocation pore; other site 688245008132 Beta-lactamase; Region: Beta-lactamase; pfam00144 688245008133 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245008134 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245008135 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 688245008136 dimerization interface [polypeptide binding]; other site 688245008137 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 688245008138 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245008139 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245008140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245008141 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 688245008142 dimerization interface [polypeptide binding]; other site 688245008143 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245008144 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 688245008145 NAD(P) binding site [chemical binding]; other site 688245008146 active site 688245008147 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14965 688245008148 Uncharacterized conserved protein [Function unknown]; Region: COG3339 688245008149 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245008150 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 688245008151 putative substrate translocation pore; other site 688245008152 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 688245008153 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245008154 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 688245008155 dimerization interface [polypeptide binding]; other site 688245008156 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 688245008157 AAA domain; Region: AAA_17; cl19128 688245008158 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 688245008159 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245008160 Coenzyme A binding pocket [chemical binding]; other site 688245008161 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl19096 688245008162 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl19096 688245008163 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 688245008164 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 688245008165 C-terminal domain interface [polypeptide binding]; other site 688245008166 GSH binding site (G-site) [chemical binding]; other site 688245008167 dimer interface [polypeptide binding]; other site 688245008168 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 688245008169 dimer interface [polypeptide binding]; other site 688245008170 N-terminal domain interface [polypeptide binding]; other site 688245008171 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 688245008172 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245008173 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 688245008174 dimerization interface [polypeptide binding]; other site 688245008175 substrate binding pocket [chemical binding]; other site 688245008176 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 688245008177 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 688245008178 active site 688245008179 phosphorylation site [posttranslational modification] 688245008180 intermolecular recognition site; other site 688245008181 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 688245008182 DNA binding residues [nucleotide binding] 688245008183 dimerization interface [polypeptide binding]; other site 688245008184 Histidine kinase; Region: HisKA_3; pfam07730 688245008185 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 688245008186 ATP binding site [chemical binding]; other site 688245008187 Mg2+ binding site [ion binding]; other site 688245008188 G-X-G motif; other site 688245008189 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 688245008190 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 688245008191 active site 688245008192 phosphorylation site [posttranslational modification] 688245008193 intermolecular recognition site; other site 688245008194 dimerization interface [polypeptide binding]; other site 688245008195 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 688245008196 DNA binding residues [nucleotide binding] 688245008197 dimerization interface [polypeptide binding]; other site 688245008198 Fimbrial protein; Region: Fimbrial; pfam00419 688245008199 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 688245008200 Pili and flagellar-assembly chaperone, PapD N-terminal domain; Region: PapD_N; pfam00345 688245008201 Pili assembly chaperone PapD, C-terminal domain; Region: PapD_C; pfam02753 688245008202 PapC N-terminal domain; Region: PapC_N; pfam13954 688245008203 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 688245008204 Outer membrane usher protein; Region: Usher; pfam00577 688245008205 PapC C-terminal domain; Region: PapC_C; pfam13953 688245008206 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 688245008207 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 688245008208 active site 688245008209 Integrase core domain; Region: rve_3; cl15866 688245008210 Mannitol repressor; Region: MtlR; cl11450 688245008211 Pyridoxamine-phosphate oxidase [Coenzyme metabolism]; Region: PdxH; COG0259 688245008212 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 688245008213 Pyridoxine 5'-phosphate oxidase C-terminal dimerization region; Region: PNPOx_C; pfam10590 688245008214 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245008215 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245008216 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 688245008217 dimerization interface [polypeptide binding]; other site 688245008218 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 688245008219 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245008220 Coenzyme A binding pocket [chemical binding]; other site 688245008221 GrpB protein; Region: GrpB; pfam04229 688245008222 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 688245008223 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 688245008224 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 688245008225 homotrimer interaction site [polypeptide binding]; other site 688245008226 putative active site [active] 688245008227 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 688245008228 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 688245008229 oligomer interface [polypeptide binding]; other site 688245008230 metal binding site [ion binding]; metal-binding site 688245008231 metal binding site [ion binding]; metal-binding site 688245008232 putative Cl binding site [ion binding]; other site 688245008233 basic sphincter; other site 688245008234 hydrophobic gate; other site 688245008235 periplasmic entrance; other site 688245008236 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245008237 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245008238 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 688245008239 putative effector binding pocket; other site 688245008240 putative dimerization interface [polypeptide binding]; other site 688245008241 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 688245008242 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 688245008243 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 688245008244 atypical (a) SDRs, subgroup 6; Region: SDR_a6; cd05267 688245008245 putative NAD(P) binding site [chemical binding]; other site 688245008246 Old yellow enzyme (OYE)-related FMN binding domain, group 4. 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_4_FMN; cd04735 688245008247 putative active site [active] 688245008248 putative FMN binding site [chemical binding]; other site 688245008249 putative substrate binding site [chemical binding]; other site 688245008250 putative catalytic residue [active] 688245008251 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 688245008252 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 688245008253 NAD(P) binding site [chemical binding]; other site 688245008254 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 688245008255 trimer interface [polypeptide binding]; other site 688245008256 eyelet of channel; other site 688245008257 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245008258 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 688245008259 non-specific DNA binding site [nucleotide binding]; other site 688245008260 salt bridge; other site 688245008261 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 688245008262 sequence-specific DNA binding site [nucleotide binding]; other site 688245008263 Integrase core domain; Region: rve; pfam00665 688245008264 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 688245008265 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 688245008266 Walker A motif; other site 688245008267 ATP binding site [chemical binding]; other site 688245008268 Walker B motif; other site 688245008269 arginine finger; other site 688245008270 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 688245008271 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 688245008272 substrate binding pocket [chemical binding]; other site 688245008273 membrane-bound complex binding site; other site 688245008274 hinge residues; other site 688245008275 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 688245008276 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 688245008277 dimer interface [polypeptide binding]; other site 688245008278 phosphorylation site [posttranslational modification] 688245008279 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 688245008280 ATP binding site [chemical binding]; other site 688245008281 Mg2+ binding site [ion binding]; other site 688245008282 G-X-G motif; other site 688245008283 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 688245008284 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 688245008285 active site 688245008286 phosphorylation site [posttranslational modification] 688245008287 intermolecular recognition site; other site 688245008288 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 688245008289 active site 688245008290 phosphorylation site [posttranslational modification] 688245008291 intermolecular recognition site; other site 688245008292 dimerization interface [polypeptide binding]; other site 688245008293 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 688245008294 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 688245008295 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 688245008296 dimer interface [polypeptide binding]; other site 688245008297 phosphorylation site [posttranslational modification] 688245008298 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 688245008299 ATP binding site [chemical binding]; other site 688245008300 Mg2+ binding site [ion binding]; other site 688245008301 G-X-G motif; other site 688245008302 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 688245008303 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 688245008304 active site 688245008305 phosphorylation site [posttranslational modification] 688245008306 intermolecular recognition site; other site 688245008307 dimerization interface [polypeptide binding]; other site 688245008308 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 688245008309 putative binding surface; other site 688245008310 active site 688245008311 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245008312 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; cl17220 688245008313 putative Zn2+ binding site [ion binding]; other site 688245008314 putative DNA binding site [nucleotide binding]; other site 688245008315 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245008316 Coenzyme A binding pocket [chemical binding]; other site 688245008317 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 688245008318 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 688245008319 EamA-like transporter family; Region: EamA; pfam00892 688245008320 EamA-like transporter family; Region: EamA; pfam00892 688245008321 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245008322 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245008323 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 688245008324 dimerization interface [polypeptide binding]; other site 688245008325 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 688245008326 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245008327 DNA-binding site [nucleotide binding]; DNA binding site 688245008328 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 688245008329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245008330 homodimer interface [polypeptide binding]; other site 688245008331 catalytic residue [active] 688245008332 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245008333 metal binding site [ion binding]; metal-binding site 688245008334 active site 688245008335 I-site; other site 688245008336 chaperone protein HchA; Provisional; Region: PRK04155 688245008337 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 688245008338 conserved cys residue [active] 688245008339 LuxR family transcriptional regulatory, chaperone HchA-associated; Region: reg_near_HchA; TIGR03541 688245008340 Autoinducer binding domain; Region: Autoind_bind; pfam03472 688245008341 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 688245008342 DNA binding residues [nucleotide binding] 688245008343 dimerization interface [polypeptide binding]; other site 688245008344 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 688245008345 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_2; cd07253 688245008346 dimer interface [polypeptide binding]; other site 688245008347 metal binding site [ion binding]; metal-binding site 688245008348 Protein of unknown function, DUF606; Region: DUF606; pfam04657 688245008349 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245008350 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245008351 The C-terminal substrate binding domain of LysR-type transcriptional regulator ToxR regulates the expression of the toxoflavin biosynthesis genes; contains the type 2 periplasmic bindinig fold; Region: PBP2_ToxR; cd08465 688245008352 putative substrate binding pocket [chemical binding]; other site 688245008353 putative dimerization interface [polypeptide binding]; other site 688245008354 Protein of unknown function (DUF1706); Region: DUF1706; cl01748 688245008355 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 688245008356 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245008357 Coenzyme A binding pocket [chemical binding]; other site 688245008358 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 688245008359 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245008360 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 688245008361 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 688245008362 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 688245008363 Catalytic site [active] 688245008364 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 688245008365 P-loop containing region of AAA domain; Region: AAA_29; cl17516 688245008366 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 688245008367 Q-loop/lid; other site 688245008368 ABC transporter signature motif; other site 688245008369 Walker B; other site 688245008370 D-loop; other site 688245008371 H-loop/switch region; other site 688245008372 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 688245008373 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 688245008374 Ligand Binding Site [chemical binding]; other site 688245008375 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 688245008376 Ligand Binding Site [chemical binding]; other site 688245008377 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 688245008378 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245008379 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245008380 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245008381 ABC transporter signature motif; other site 688245008382 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 688245008383 dimerization interface [polypeptide binding]; other site 688245008384 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 688245008385 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245008386 Coenzyme A binding pocket [chemical binding]; other site 688245008387 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 688245008388 non-specific DNA binding site [nucleotide binding]; other site 688245008389 salt bridge; other site 688245008390 sequence-specific DNA binding site [nucleotide binding]; other site 688245008391 HipA N-terminal domain; Region: Couple_hipA; cl11853 688245008392 HipA-like N-terminal domain; Region: HipA_N; pfam07805 688245008393 HipA-like C-terminal domain; Region: HipA_C; pfam07804 688245008394 Fic/DOC family; Region: Fic; pfam02661 688245008395 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 688245008396 active site 688245008397 Int/Topo IB signature motif; other site 688245008398 DNA binding site [nucleotide binding] 688245008399 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 688245008400 Catalytic site; other site 688245008401 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 688245008402 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 688245008403 Predicted membrane protein [Function unknown]; Region: COG4129 688245008404 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 688245008405 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 688245008406 Protein of unknown function (DUF4043); Region: DUF4043; pfam13252 688245008407 Gas vesicle protein G; Region: GvpG; pfam05120 688245008408 Phage terminase large subunit; Region: Terminase_3; cl12054 688245008409 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 688245008410 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 688245008411 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 688245008412 S-adenosylmethionine binding site [chemical binding]; other site 688245008413 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 688245008414 active site 688245008415 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 688245008416 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 688245008417 Helix-turn-helix domain; Region: HTH_36; pfam13730 688245008418 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 688245008419 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 688245008420 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 688245008421 Catalytic site [active] 688245008422 recombination associated protein; Reviewed; Region: rdgC; PRK00321 688245008423 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 688245008424 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 688245008425 active site 688245008426 DNA binding site [nucleotide binding] 688245008427 Int/Topo IB signature motif; other site 688245008428 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 688245008429 Protoheme IX farnesyltransferase; Region: PT_UbiA_Cox10; cd13957 688245008430 putative active site [active] 688245008431 Cytochrome c [Energy production and conversion]; Region: COG3258 688245008432 Cytochrome c; Region: Cytochrom_C; pfam00034 688245008433 Cytochrome c; Region: Cytochrom_C; cl11414 688245008434 Cytochrome c; Region: Cytochrom_C; cl11414 688245008435 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 688245008436 HAMP domain; Region: HAMP; pfam00672 688245008437 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 688245008438 dimer interface [polypeptide binding]; other site 688245008439 phosphorylation site [posttranslational modification] 688245008440 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 688245008441 ATP binding site [chemical binding]; other site 688245008442 Mg2+ binding site [ion binding]; other site 688245008443 G-X-G motif; other site 688245008444 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 688245008445 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 688245008446 active site 688245008447 phosphorylation site [posttranslational modification] 688245008448 intermolecular recognition site; other site 688245008449 dimerization interface [polypeptide binding]; other site 688245008450 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 688245008451 DNA binding site [nucleotide binding] 688245008452 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 688245008453 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 688245008454 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 688245008455 catalytic residues [active] 688245008456 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 688245008457 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 688245008458 dimer interface [polypeptide binding]; other site 688245008459 catalytic residues [active] 688245008460 DsrE/DsrF-like family; Region: DrsE; cl00672 688245008461 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 688245008462 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 688245008463 active site 688245008464 nucleophile elbow; other site 688245008465 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 688245008466 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 688245008467 nucleotide binding pocket [chemical binding]; other site 688245008468 K-X-D-G motif; other site 688245008469 catalytic site [active] 688245008470 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 688245008471 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 688245008472 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 688245008473 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 688245008474 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 688245008475 Dimer interface [polypeptide binding]; other site 688245008476 BRCT sequence motif; other site 688245008477 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 688245008478 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 688245008479 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 688245008480 Walker A/P-loop; other site 688245008481 ATP binding site [chemical binding]; other site 688245008482 Q-loop/lid; other site 688245008483 Apolipophorin-III and similar insect proteins; Region: ApoLp-III_like; cl19113 688245008484 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 688245008485 Protein of unknown function (DUF4527); Region: DUF4527; pfam15030 688245008486 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 688245008487 ABC transporter signature motif; other site 688245008488 Walker B; other site 688245008489 D-loop; other site 688245008490 H-loop/switch region; other site 688245008491 hypothetical protein; Provisional; Region: PRK02237 688245008492 CHASE domain; Region: CHASE; cl01369 688245008493 PAS domain S-box; Region: sensory_box; TIGR00229 688245008494 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 688245008495 putative active site [active] 688245008496 heme pocket [chemical binding]; other site 688245008497 PAS domain; Region: PAS_8; pfam13188 688245008498 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245008499 metal binding site [ion binding]; metal-binding site 688245008500 active site 688245008501 I-site; other site 688245008502 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 688245008503 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 688245008504 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 688245008505 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 688245008506 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 688245008507 Outer membrane efflux protein; Region: OEP; pfam02321 688245008508 Outer membrane efflux protein; Region: OEP; pfam02321 688245008509 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 688245008510 MMPL family; Region: MMPL; cl14618 688245008511 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 688245008512 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 688245008513 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245008514 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 688245008515 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245008516 putative substrate translocation pore; other site 688245008517 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 688245008518 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 688245008519 putative substrate translocation pore; other site 688245008520 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 688245008521 hypothetical protein; Provisional; Region: PRK06194 688245008522 classical (c) SDRs; Region: SDR_c; cd05233 688245008523 NAD(P) binding site [chemical binding]; other site 688245008524 active site 688245008525 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 688245008526 Prostaglandin dehydrogenases; Region: PGDH; cd05288 688245008527 NAD(P) binding site [chemical binding]; other site 688245008528 substrate binding site [chemical binding]; other site 688245008529 dimer interface [polypeptide binding]; other site 688245008530 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 688245008531 CoenzymeA binding site [chemical binding]; other site 688245008532 subunit interaction site [polypeptide binding]; other site 688245008533 PHB binding site; other site 688245008534 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 688245008535 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245008536 NAD(P) binding site [chemical binding]; other site 688245008537 active site 688245008538 PsbP; Region: PsbP; cl03356 688245008539 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 688245008540 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 688245008541 DNA binding site [nucleotide binding] 688245008542 active site 688245008543 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 688245008544 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 688245008545 S-adenosylmethionine binding site [chemical binding]; other site 688245008546 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 688245008547 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 688245008548 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 688245008549 nucleoside/Zn binding site; other site 688245008550 dimer interface [polypeptide binding]; other site 688245008551 catalytic motif [active] 688245008552 putative cyanate transporter; Provisional; Region: cynX; PRK09705 688245008553 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 688245008554 putative substrate translocation pore; other site 688245008555 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 688245008556 Zn2+ binding site [ion binding]; other site 688245008557 Mg2+ binding site [ion binding]; other site 688245008558 AAA domain; Region: AAA_17; cl19128 688245008559 AAA domain; Region: AAA_33; pfam13671 688245008560 RNA ligase; Region: RNA_ligase; cl19220 688245008561 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 688245008562 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 688245008563 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 688245008564 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 688245008565 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245008566 Walker A/P-loop; other site 688245008567 ATP binding site [chemical binding]; other site 688245008568 Q-loop/lid; other site 688245008569 ABC transporter signature motif; other site 688245008570 Walker B; other site 688245008571 D-loop; other site 688245008572 H-loop/switch region; other site 688245008573 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 688245008574 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 688245008575 dimer interface [polypeptide binding]; other site 688245008576 conserved gate region; other site 688245008577 putative PBP binding loops; other site 688245008578 ABC-ATPase subunit interface; other site 688245008579 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 688245008580 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 688245008581 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 688245008582 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 688245008583 putative DNA binding site [nucleotide binding]; other site 688245008584 dimerization interface [polypeptide binding]; other site 688245008585 putative Zn2+ binding site [ion binding]; other site 688245008586 AsnC family; Region: AsnC_trans_reg; pfam01037 688245008587 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 688245008588 Cytochrome c; Region: Cytochrom_C; pfam00034 688245008589 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 688245008590 Cytochrome c; Region: Cytochrom_C; pfam00034 688245008591 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 688245008592 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245008593 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 688245008594 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 688245008595 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 688245008596 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 688245008597 dimer interface [polypeptide binding]; other site 688245008598 phosphorylation site [posttranslational modification] 688245008599 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 688245008600 ATP binding site [chemical binding]; other site 688245008601 Mg2+ binding site [ion binding]; other site 688245008602 G-X-G motif; other site 688245008603 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 688245008604 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 688245008605 active site 688245008606 phosphorylation site [posttranslational modification] 688245008607 intermolecular recognition site; other site 688245008608 dimerization interface [polypeptide binding]; other site 688245008609 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 688245008610 DNA binding site [nucleotide binding] 688245008611 methionine sulfoxide reductase B; Provisional; Region: PRK00222 688245008612 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 688245008613 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 688245008614 catalytic residues [active] 688245008615 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 688245008616 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 688245008617 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 688245008618 active site 688245008619 catalytic site [active] 688245008620 substrate binding site [chemical binding]; other site 688245008621 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 688245008622 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 688245008623 catalytic loop [active] 688245008624 iron binding site [ion binding]; other site 688245008625 chaperone protein HscA; Provisional; Region: hscA; PRK05183 688245008626 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 688245008627 nucleotide binding site [chemical binding]; other site 688245008628 putative NEF/HSP70 interaction site [polypeptide binding]; other site 688245008629 SBD interface [polypeptide binding]; other site 688245008630 co-chaperone HscB; Provisional; Region: hscB; PRK03578 688245008631 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 688245008632 HSP70 interaction site [polypeptide binding]; other site 688245008633 HSCB C-terminal oligomerization domain; Region: HSCB_C; pfam07743 688245008634 iron-sulfur cluster assembly protein IscA; Region: IscA; TIGR02011 688245008635 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 688245008636 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 688245008637 trimerization site [polypeptide binding]; other site 688245008638 active site 688245008639 cysteine desulfurase; Provisional; Region: PRK14012 688245008640 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 688245008641 catalytic residue [active] 688245008642 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 688245008643 Rrf2 family protein; Region: rrf2_super; TIGR00738 688245008644 excinuclease ABC subunit B; Provisional; Region: PRK05298 688245008645 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 688245008646 ATP binding site [chemical binding]; other site 688245008647 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 688245008648 nucleotide binding region [chemical binding]; other site 688245008649 ATP-binding site [chemical binding]; other site 688245008650 Ultra-violet resistance protein B; Region: UvrB; pfam12344 688245008651 UvrB/uvrC motif; Region: UVR; pfam02151 688245008652 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 688245008653 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 688245008654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245008655 homodimer interface [polypeptide binding]; other site 688245008656 catalytic residue [active] 688245008657 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 688245008658 putative active site [active] 688245008659 metal binding site [ion binding]; metal-binding site 688245008660 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 688245008661 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 688245008662 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 688245008663 active site 688245008664 catalytic tetrad [active] 688245008665 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 688245008666 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 688245008667 Subunit B of the Class III extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of protocatechuate; Region: PCA_45_Dioxygenase_B; cd07364 688245008668 active site 688245008669 Fe(II) binding site [ion binding]; other site 688245008670 dimer interface [polypeptide binding]; other site 688245008671 tetramer interface [polypeptide binding]; other site 688245008672 The A subunit of Protocatechuate 4,5-dioxygenase (LigAB) is the smaller, non-catalytic subunit; Region: PCA_45_Doxase_A; cd07924 688245008673 tetramer interface [polypeptide binding]; other site 688245008674 dimer interface [polypeptide binding]; other site 688245008675 active site 688245008676 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 688245008677 active site 688245008678 hypothetical protein; Provisional; Region: PRK09262 688245008679 Amidohydrolase; Region: Amidohydro_2; pfam04909 688245008680 benzoate transport; Region: 2A0115; TIGR00895 688245008681 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 688245008682 putative substrate translocation pore; other site 688245008683 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 688245008684 Cytochrome P450; Region: p450; cl12078 688245008685 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 688245008686 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 688245008687 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 688245008688 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 688245008689 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 688245008690 Glycosyltransferase family 29 (sialyltransferase); Region: Glyco_transf_29; pfam00777 688245008691 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 688245008692 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 688245008693 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 688245008694 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 688245008695 active site 688245008696 dimer interface [polypeptide binding]; other site 688245008697 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 688245008698 dimer interface [polypeptide binding]; other site 688245008699 active site 688245008700 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 688245008701 active site 688245008702 tetramer interface; other site 688245008703 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl19126 688245008704 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 688245008705 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 688245008706 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 688245008707 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 688245008708 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 688245008709 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 688245008710 substrate binding site; other site 688245008711 tetramer interface; other site 688245008712 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 688245008713 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 688245008714 NADP binding site [chemical binding]; other site 688245008715 active site 688245008716 putative substrate binding site [chemical binding]; other site 688245008717 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 688245008718 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 688245008719 NAD binding site [chemical binding]; other site 688245008720 substrate binding site [chemical binding]; other site 688245008721 homodimer interface [polypeptide binding]; other site 688245008722 active site 688245008723 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 688245008724 Glycosyltransferase WbsX; Region: Glyco_tran_WbsX; pfam14307 688245008725 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 688245008726 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 688245008727 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 688245008728 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 688245008729 active site 688245008730 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 688245008731 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 688245008732 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 688245008733 putative ligand binding site [chemical binding]; other site 688245008734 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 688245008735 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 688245008736 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 688245008737 Probable Catalytic site; other site 688245008738 metal-binding site 688245008739 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 688245008740 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 688245008741 Probable Catalytic site; other site 688245008742 metal-binding site 688245008743 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 688245008744 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 688245008745 Chain length determinant protein; Region: Wzz; cl19730 688245008746 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 688245008747 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245008748 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 688245008749 Q-loop/lid; other site 688245008750 ABC transporter signature motif; other site 688245008751 Walker B; other site 688245008752 D-loop; other site 688245008753 H-loop/switch region; other site 688245008754 ABC-2 type transporter; Region: ABC2_membrane; cl17235 688245008755 selenophosphate synthetase; Provisional; Region: PRK00943 688245008756 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 688245008757 dimerization interface [polypeptide binding]; other site 688245008758 putative ATP binding site [chemical binding]; other site 688245008759 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 688245008760 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; cl17220 688245008761 putative DNA binding site [nucleotide binding]; other site 688245008762 putative Zn2+ binding site [ion binding]; other site 688245008763 hypothetical protein; Provisional; Region: PRK02877 688245008764 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245008765 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245008766 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 688245008767 dimerization interface [polypeptide binding]; other site 688245008768 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245008769 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 688245008770 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 688245008771 Cupin domain; Region: Cupin_2; pfam07883 688245008772 Cupin domain; Region: Cupin_2; cl17218 688245008773 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 688245008774 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 688245008775 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 688245008776 maleylacetoacetate isomerase; Region: maiA; TIGR01262 688245008777 C-terminal domain interface [polypeptide binding]; other site 688245008778 GSH binding site (G-site) [chemical binding]; other site 688245008779 putative dimer interface [polypeptide binding]; other site 688245008780 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 688245008781 dimer interface [polypeptide binding]; other site 688245008782 N-terminal domain interface [polypeptide binding]; other site 688245008783 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 688245008784 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245008785 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 688245008786 tetrameric interface [polypeptide binding]; other site 688245008787 NAD binding site [chemical binding]; other site 688245008788 catalytic residues [active] 688245008789 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 688245008790 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 688245008791 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245008792 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245008793 active site 688245008794 Protein of unknown function, DUF488; Region: DUF488; cl01246 688245008795 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 688245008796 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 688245008797 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 688245008798 Cupin domain; Region: Cupin_2; cl17218 688245008799 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 688245008800 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245008801 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 688245008802 tetrameric interface [polypeptide binding]; other site 688245008803 NAD binding site [chemical binding]; other site 688245008804 catalytic residues [active] 688245008805 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245008806 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 688245008807 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 688245008808 dimerization interface [polypeptide binding]; other site 688245008809 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245008810 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245008811 active site 688245008812 Cupin domain; Region: Cupin_2; pfam07883 688245008813 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 688245008814 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245008815 Cupin domain; Region: Cupin_2; cl17218 688245008816 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; cl18945 688245008817 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 688245008818 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245008819 DNA-binding site [nucleotide binding]; DNA binding site 688245008820 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 688245008821 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245008822 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 688245008823 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 688245008824 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245008825 Coenzyme A binding pocket [chemical binding]; other site 688245008826 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 688245008827 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 688245008828 active site residue [active] 688245008829 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 688245008830 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 688245008831 catalytic motif [active] 688245008832 Catalytic residue [active] 688245008833 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 688245008834 catalytic residues [active] 688245008835 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 688245008836 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 688245008837 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 688245008838 Trp docking motif [polypeptide binding]; other site 688245008839 putative active site [active] 688245008840 isocitrate dehydrogenase; Reviewed; Region: PRK07006 688245008841 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 688245008842 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 688245008843 Probable pheophorbidase; Region: PLN02965; cl17657 688245008844 AraC-binding-like domain; Region: AraC_binding_2; pfam14525 688245008845 Helix-turn-helix domain; Region: HTH_18; pfam12833 688245008846 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245008847 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 688245008848 H-NS histone family; Region: Histone_HNS; pfam00816 688245008849 Domain in histone-like proteins of HNS family; Region: HNS; cl19571 688245008850 CHASE3 domain; Region: CHASE3; pfam05227 688245008851 PAS fold; Region: PAS_4; pfam08448 688245008852 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 688245008853 putative active site [active] 688245008854 heme pocket [chemical binding]; other site 688245008855 PAS fold; Region: PAS_4; pfam08448 688245008856 GAF domain; Region: GAF_2; pfam13185 688245008857 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245008858 metal binding site [ion binding]; metal-binding site 688245008859 active site 688245008860 I-site; other site 688245008861 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 688245008862 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 688245008863 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 688245008864 putative active site [active] 688245008865 metal binding site [ion binding]; metal-binding site 688245008866 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 688245008867 superoxide dismutase; Provisional; Region: PRK10543 688245008868 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 688245008869 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 688245008870 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 688245008871 generic binding surface II; other site 688245008872 generic binding surface I; other site 688245008873 Synaptobrevin; Region: Synaptobrevin; pfam00957 688245008874 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 688245008875 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 688245008876 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 688245008877 Dyp-type peroxidase family; Region: Dyp_perox_fam; TIGR01413 688245008878 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 688245008879 putative hydrophobic ligand binding site [chemical binding]; other site 688245008880 CHAD domain; Region: CHAD; pfam05235 688245008881 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 688245008882 active site 688245008883 catalytic tetrad [active] 688245008884 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 688245008885 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245008886 dimerization interface [polypeptide binding]; other site 688245008887 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 688245008888 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 688245008889 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 688245008890 Uncharacterized conserved protein [Function unknown]; Region: COG2835 688245008891 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 688245008892 Ligand binding site; other site 688245008893 oligomer interface; other site 688245008894 adenylate kinase; Reviewed; Region: adk; PRK00279 688245008895 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 688245008896 AMP-binding site [chemical binding]; other site 688245008897 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 688245008898 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 688245008899 active site 688245008900 homotetramer interface [polypeptide binding]; other site 688245008901 homodimer interface [polypeptide binding]; other site 688245008902 LexA repressor; Validated; Region: PRK00215 688245008903 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 688245008904 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 688245008905 Catalytic site [active] 688245008906 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 688245008907 Ligand Binding Site [chemical binding]; other site 688245008908 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 688245008909 heme-binding site [chemical binding]; other site 688245008910 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 688245008911 Ligand Binding Site [chemical binding]; other site 688245008912 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 688245008913 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 688245008914 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 688245008915 active site 688245008916 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 688245008917 PRC-barrel domain; Region: PRC; pfam05239 688245008918 Cupin domain; Region: Cupin_2; cl17218 688245008919 Domain of unknown function (DUF333); Region: DUF333; pfam03891 688245008920 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245008921 metal binding site [ion binding]; metal-binding site 688245008922 active site 688245008923 I-site; other site 688245008924 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 688245008925 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245008926 metal binding site [ion binding]; metal-binding site 688245008927 active site 688245008928 I-site; other site 688245008929 PAS domain; Region: PAS_9; pfam13426 688245008930 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 688245008931 putative active site [active] 688245008932 heme pocket [chemical binding]; other site 688245008933 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 688245008934 PAS domain; Region: PAS_9; pfam13426 688245008935 putative active site [active] 688245008936 heme pocket [chemical binding]; other site 688245008937 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245008938 metal binding site [ion binding]; metal-binding site 688245008939 active site 688245008940 I-site; other site 688245008941 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 688245008942 dimerization interface [polypeptide binding]; other site 688245008943 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 688245008944 NAD binding site [chemical binding]; other site 688245008945 ligand binding site [chemical binding]; other site 688245008946 catalytic site [active] 688245008947 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 688245008948 multifunctional aminopeptidase A; Provisional; Region: PRK00913 688245008949 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 688245008950 interface (dimer of trimers) [polypeptide binding]; other site 688245008951 Substrate-binding/catalytic site; other site 688245008952 Zn-binding sites [ion binding]; other site 688245008953 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 688245008954 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; cl12074 688245008955 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 688245008956 putative active site [active] 688245008957 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 688245008958 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245008959 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 688245008960 substrate binding site [chemical binding]; other site 688245008961 dimerization interface [polypeptide binding]; other site 688245008962 methionine aminotransferase; Validated; Region: PRK09082 688245008963 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 688245008964 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245008965 homodimer interface [polypeptide binding]; other site 688245008966 catalytic residue [active] 688245008967 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 688245008968 active site 688245008969 metal binding site [ion binding]; metal-binding site 688245008970 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 688245008971 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 688245008972 Cytochrome c [Energy production and conversion]; Region: COG3258 688245008973 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 688245008974 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 688245008975 Cytochrome c; Region: Cytochrom_C; pfam00034 688245008976 Cytochrome c; Region: Cytochrom_C; cl11414 688245008977 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 688245008978 Moco binding site; other site 688245008979 metal coordination site [ion binding]; other site 688245008980 Cytochrome c; Region: Cytochrom_C; cl11414 688245008981 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 688245008982 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 688245008983 DsrE/DsrF-like family; Region: DrsE; cl00672 688245008984 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 688245008985 dimerization interface [polypeptide binding]; other site 688245008986 putative DNA binding site [nucleotide binding]; other site 688245008987 putative Zn2+ binding site [ion binding]; other site 688245008988 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 688245008989 dimer interface [polypeptide binding]; other site 688245008990 ADP-ribose binding site [chemical binding]; other site 688245008991 active site 688245008992 nudix motif; other site 688245008993 metal binding site [ion binding]; metal-binding site 688245008994 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 688245008995 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 688245008996 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245008997 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 688245008998 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 688245008999 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 688245009000 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 688245009001 substrate binding pocket [chemical binding]; other site 688245009002 active site 688245009003 iron coordination sites [ion binding]; other site 688245009004 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 688245009005 Serine hydrolase; Region: Ser_hydrolase; pfam06821 688245009006 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245009007 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 688245009008 trimer interface [polypeptide binding]; other site 688245009009 eyelet of channel; other site 688245009010 Ferredoxin subunits of nitrite reductase and ring-hydroxylating dioxygenases [Inorganic ion transport and metabolism / General function prediction only]; Region: {NirD}; COG2146 688245009011 iron-sulfur cluster [ion binding]; other site 688245009012 [2Fe-2S] cluster binding site [ion binding]; other site 688245009013 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 688245009014 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 688245009015 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 688245009016 NADP binding site [chemical binding]; other site 688245009017 dimer interface [polypeptide binding]; other site 688245009018 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 688245009019 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 688245009020 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245009021 active site 688245009022 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 688245009023 ribonuclease G; Provisional; Region: PRK11712 688245009024 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 688245009025 homodimer interface [polypeptide binding]; other site 688245009026 oligonucleotide binding site [chemical binding]; other site 688245009027 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 688245009028 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 688245009029 active site 688245009030 dimer interface [polypeptide binding]; other site 688245009031 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 688245009032 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 688245009033 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 688245009034 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 688245009035 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 688245009036 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 688245009037 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 688245009038 hypothetical protein; Validated; Region: PRK00110 688245009039 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 688245009040 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 688245009041 Walker A motif; other site 688245009042 ATP binding site [chemical binding]; other site 688245009043 enoyl-CoA hydratase; Provisional; Region: PRK06142 688245009044 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 688245009045 substrate binding site [chemical binding]; other site 688245009046 oxyanion hole (OAH) forming residues; other site 688245009047 trimer interface [polypeptide binding]; other site 688245009048 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 688245009049 tetramer interface [polypeptide binding]; other site 688245009050 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245009051 catalytic residue [active] 688245009052 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 688245009053 active site 688245009054 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 688245009055 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 688245009056 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 688245009057 potential catalytic triad [active] 688245009058 conserved cys residue [active] 688245009059 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 688245009060 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 688245009061 DNA binding residues [nucleotide binding] 688245009062 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245009063 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 688245009064 NAD(P) binding site [chemical binding]; other site 688245009065 active site 688245009066 hypothetical protein; Provisional; Region: PRK12378 688245009067 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; cl19645 688245009068 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 688245009069 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 688245009070 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 688245009071 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 688245009072 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 688245009073 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 688245009074 substrate binding pocket [chemical binding]; other site 688245009075 membrane-bound complex binding site; other site 688245009076 hinge residues; other site 688245009077 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_18; cd08357 688245009078 putative metal binding site [ion binding]; other site 688245009079 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245009080 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245009081 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 688245009082 putative dimerization interface [polypeptide binding]; other site 688245009083 exonuclease I; Provisional; Region: sbcB; PRK11779 688245009084 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 688245009085 active site 688245009086 catalytic site [active] 688245009087 substrate binding site [chemical binding]; other site 688245009088 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 688245009089 Uncharacterized conserved protein [Function unknown]; Region: RtcB; COG1690 688245009090 Predicted permeases [General function prediction only]; Region: COG0679 688245009091 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 688245009092 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 688245009093 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 688245009094 dimerization interface [polypeptide binding]; other site 688245009095 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 688245009096 dimer interface [polypeptide binding]; other site 688245009097 putative CheW interface [polypeptide binding]; other site 688245009098 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 688245009099 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 688245009100 conserved cys residue [active] 688245009101 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245009102 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 688245009103 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245009104 NAD(P) binding site [chemical binding]; other site 688245009105 active site 688245009106 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 688245009107 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 688245009108 dimer interface [polypeptide binding]; other site 688245009109 active site 688245009110 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 688245009111 CoenzymeA binding site [chemical binding]; other site 688245009112 subunit interaction site [polypeptide binding]; other site 688245009113 PHB binding site; other site 688245009114 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 688245009115 NAD+ binding site [chemical binding]; other site 688245009116 substrate binding site [chemical binding]; other site 688245009117 Zn binding site [ion binding]; other site 688245009118 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 688245009119 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 688245009120 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 688245009121 putative active site [active] 688245009122 catalytic site [active] 688245009123 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 688245009124 putative active site [active] 688245009125 catalytic site [active] 688245009126 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 688245009127 non-specific DNA binding site [nucleotide binding]; other site 688245009128 salt bridge; other site 688245009129 sequence-specific DNA binding site [nucleotide binding]; other site 688245009130 GAF domain; Region: GAF; pfam01590 688245009131 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 688245009132 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 688245009133 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 688245009134 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 688245009135 D-galactonate transporter; Region: 2A0114; TIGR00893 688245009136 putative substrate translocation pore; other site 688245009137 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 688245009138 dihydropyrimidinase; Provisional; Region: PRK13404 688245009139 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 688245009140 tetramer interface [polypeptide binding]; other site 688245009141 active site 688245009142 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 688245009143 Transcriptional regulators [Transcription]; Region: GntR; COG1802 688245009144 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 688245009145 DNA-binding site [nucleotide binding]; DNA binding site 688245009146 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 688245009147 Chromate transporter; Region: Chromate_transp; pfam02417 688245009148 Chromate transporter; Region: Chromate_transp; pfam02417 688245009149 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 688245009150 NAD+ binding site [chemical binding]; other site 688245009151 substrate binding site [chemical binding]; other site 688245009152 Zn binding site [ion binding]; other site 688245009153 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 688245009154 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 688245009155 putative active site [active] 688245009156 heme pocket [chemical binding]; other site 688245009157 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 688245009158 dimer interface [polypeptide binding]; other site 688245009159 phosphorylation site [posttranslational modification] 688245009160 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 688245009161 ATP binding site [chemical binding]; other site 688245009162 Mg2+ binding site [ion binding]; other site 688245009163 G-X-G motif; other site 688245009164 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 688245009165 active site 688245009166 phosphorylation site [posttranslational modification] 688245009167 intermolecular recognition site; other site 688245009168 dimerization interface [polypeptide binding]; other site 688245009169 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 688245009170 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 688245009171 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 688245009172 serine/threonine transporter SstT; Provisional; Region: PRK13628 688245009173 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 688245009174 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 688245009175 Walker A/P-loop; other site 688245009176 ATP binding site [chemical binding]; other site 688245009177 Q-loop/lid; other site 688245009178 ABC transporter signature motif; other site 688245009179 Walker B; other site 688245009180 D-loop; other site 688245009181 H-loop/switch region; other site 688245009182 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 688245009183 active site 688245009184 catalytic triad [active] 688245009185 oxyanion hole [active] 688245009186 switch loop; other site 688245009187 Predicted integral membrane protein (DUF2189); Region: DUF2189; pfam09955 688245009188 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; cl18945 688245009189 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 688245009190 catalytic residue [active] 688245009191 BON domain; Region: BON; pfam04972 688245009192 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 688245009193 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245009194 putative substrate translocation pore; other site 688245009195 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 688245009196 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 688245009197 active site 688245009198 nucleophile elbow; other site 688245009199 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 688245009200 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 688245009201 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245009202 active site 688245009203 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 688245009204 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 688245009205 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 688245009206 dimer interface [polypeptide binding]; other site 688245009207 active site 688245009208 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 688245009209 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 688245009210 substrate binding site [chemical binding]; other site 688245009211 oxyanion hole (OAH) forming residues; other site 688245009212 trimer interface [polypeptide binding]; other site 688245009213 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 688245009214 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 688245009215 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 688245009216 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 688245009217 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 688245009218 Walker A/P-loop; other site 688245009219 ATP binding site [chemical binding]; other site 688245009220 Q-loop/lid; other site 688245009221 ABC transporter signature motif; other site 688245009222 Walker B; other site 688245009223 D-loop; other site 688245009224 H-loop/switch region; other site 688245009225 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 688245009226 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 688245009227 Walker A/P-loop; other site 688245009228 ATP binding site [chemical binding]; other site 688245009229 Q-loop/lid; other site 688245009230 ABC transporter signature motif; other site 688245009231 Walker B; other site 688245009232 D-loop; other site 688245009233 H-loop/switch region; other site 688245009234 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 688245009235 TM-ABC transporter signature motif; other site 688245009236 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 688245009237 TM-ABC transporter signature motif; other site 688245009238 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 688245009239 putative ligand binding site [chemical binding]; other site 688245009240 putative carboxyl-terminal-processing protease, deltaproteobacterial; Region: prc_long_Delta; TIGR03900 688245009241 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 688245009242 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 688245009243 putative ligand binding site [chemical binding]; other site 688245009244 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 688245009245 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 688245009246 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 688245009247 dimer interface [polypeptide binding]; other site 688245009248 acyl-activating enzyme (AAE) consensus motif; other site 688245009249 putative active site [active] 688245009250 AMP binding site [chemical binding]; other site 688245009251 putative CoA binding site [chemical binding]; other site 688245009252 hypothetical protein; Validated; Region: PRK00029 688245009253 methionine sulfoxide reductase B; Provisional; Region: PRK00222 688245009254 intracellular septation protein A; Reviewed; Region: PRK00259 688245009255 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 688245009256 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 688245009257 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK12323 688245009258 RNA polymerase sigma factor; Provisional; Region: PRK12513 688245009259 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 688245009260 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 688245009261 DNA binding residues [nucleotide binding] 688245009262 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 688245009263 Na binding site [ion binding]; other site 688245009264 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 688245009265 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 688245009266 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 688245009267 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 688245009268 Bacterial SH3 domain; Region: SH3_3; pfam08239 688245009269 Bacterial SH3 domain; Region: SH3_4; pfam06347 688245009270 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 688245009271 dimer interface [polypeptide binding]; other site 688245009272 substrate binding site [chemical binding]; other site 688245009273 ATP binding site [chemical binding]; other site 688245009274 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 688245009275 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245009276 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 688245009277 thiS-thiF/thiG interaction site; other site 688245009278 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 688245009279 ThiS interaction site; other site 688245009280 putative active site [active] 688245009281 tetramer interface [polypeptide binding]; other site 688245009282 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 688245009283 active site 688245009284 thiamine phosphate binding site [chemical binding]; other site 688245009285 pyrophosphate binding site [ion binding]; other site 688245009286 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 688245009287 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 688245009288 ligand binding site [chemical binding]; other site 688245009289 flexible hinge region; other site 688245009290 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 688245009291 putative switch regulator; other site 688245009292 non-specific DNA interactions [nucleotide binding]; other site 688245009293 DNA binding site [nucleotide binding] 688245009294 sequence specific DNA binding site [nucleotide binding]; other site 688245009295 putative cAMP binding site [chemical binding]; other site 688245009296 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily 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: ACAD10_11_like; cd05154 688245009297 Phosphotransferase enzyme family; Region: APH; pfam01636 688245009298 putative active site [active] 688245009299 putative substrate binding site [chemical binding]; other site 688245009300 ATP binding site [chemical binding]; other site 688245009301 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245009302 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245009303 active site 688245009304 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 688245009305 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 688245009306 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 688245009307 dimerization interface [polypeptide binding]; other site 688245009308 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 688245009309 dimer interface [polypeptide binding]; other site 688245009310 putative CheW interface [polypeptide binding]; other site 688245009311 peptide chain release factor 2; Provisional; Region: PRK08787 688245009312 This domain is found in peptide chain release factors; Region: PCRF; smart00937 688245009313 RF-1 domain; Region: RF-1; pfam00472 688245009314 aminopeptidase N; Provisional; Region: pepN; PRK14015 688245009315 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 688245009316 active site 688245009317 Zn binding site [ion binding]; other site 688245009318 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 688245009319 AMP binding site [chemical binding]; other site 688245009320 metal binding site [ion binding]; metal-binding site 688245009321 active site 688245009322 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 688245009323 catalytic residue [active] 688245009324 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 688245009325 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 688245009326 generic binding surface I; other site 688245009327 generic binding surface II; other site 688245009328 Domain of unknown function (DUF927); Region: DUF927; pfam06048 688245009329 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 688245009330 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 688245009331 active site 688245009332 metal binding site [ion binding]; metal-binding site 688245009333 interdomain interaction site; other site 688245009334 isocitrate lyase; Region: PLN02892 688245009335 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 688245009336 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 688245009337 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 688245009338 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 688245009339 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 688245009340 active site 688245009341 catalytic residues [active] 688245009342 DNA binding site [nucleotide binding] 688245009343 Int/Topo IB signature motif; other site 688245009344 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 688245009345 rRNA binding site [nucleotide binding]; other site 688245009346 predicted 30S ribosome binding site; other site 688245009347 Cache domain; Region: Cache_1; pfam02743 688245009348 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245009349 metal binding site [ion binding]; metal-binding site 688245009350 active site 688245009351 I-site; other site 688245009352 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245009353 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245009354 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 688245009355 putative dimerization interface [polypeptide binding]; other site 688245009356 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 688245009357 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 688245009358 nucleotidyl binding site; other site 688245009359 metal binding site [ion binding]; metal-binding site 688245009360 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; cl00290 688245009361 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: Peptidase_C93; cl17596 688245009362 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 688245009363 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 688245009364 metal ion-dependent adhesion site (MIDAS); other site 688245009365 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 688245009366 VCBS repeat; Region: VCBS_repeat; TIGR01965 688245009367 VCBS repeat; Region: VCBS_repeat; TIGR01965 688245009368 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 688245009369 Ca2+ binding site [ion binding]; other site 688245009370 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 688245009371 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 688245009372 DNA binding residues [nucleotide binding] 688245009373 dimerization interface [polypeptide binding]; other site 688245009374 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 688245009375 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 688245009376 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245009377 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 688245009378 putative active site [active] 688245009379 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 688245009380 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 688245009381 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 688245009382 Walker A/P-loop; other site 688245009383 ATP binding site [chemical binding]; other site 688245009384 Q-loop/lid; other site 688245009385 ABC transporter signature motif; other site 688245009386 Walker B; other site 688245009387 D-loop; other site 688245009388 H-loop/switch region; other site 688245009389 putative transporter; Provisional; Region: PRK11660 688245009390 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 688245009391 Outer membrane efflux protein; Region: OEP; pfam02321 688245009392 Outer membrane efflux protein; Region: OEP; pfam02321 688245009393 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 688245009394 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 688245009395 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 688245009396 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 688245009397 DNA binding residues [nucleotide binding] 688245009398 Alpha subunit of integration host factor (IHFA); Region: IHF_A; cd13835 688245009399 DNA binding site [nucleotide binding] 688245009400 dimer interface [polypeptide binding]; other site 688245009401 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 688245009402 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 688245009403 putative tRNA-binding site [nucleotide binding]; other site 688245009404 B3/4 domain; Region: B3_4; pfam03483 688245009405 tRNA synthetase B5 domain; Region: B5; smart00874 688245009406 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 688245009407 dimer interface [polypeptide binding]; other site 688245009408 motif 1; other site 688245009409 motif 3; other site 688245009410 motif 2; other site 688245009411 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 688245009412 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 688245009413 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 688245009414 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 688245009415 dimer interface [polypeptide binding]; other site 688245009416 motif 1; other site 688245009417 active site 688245009418 motif 2; other site 688245009419 motif 3; other site 688245009420 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 688245009421 23S rRNA binding site [nucleotide binding]; other site 688245009422 L21 binding site [polypeptide binding]; other site 688245009423 L13 binding site [polypeptide binding]; other site 688245009424 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 688245009425 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 688245009426 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 688245009427 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 688245009428 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 688245009429 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 688245009430 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 688245009431 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 688245009432 active site 688245009433 dimer interface [polypeptide binding]; other site 688245009434 motif 1; other site 688245009435 motif 2; other site 688245009436 motif 3; other site 688245009437 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 688245009438 anticodon binding site; other site 688245009439 isocitrate lyase; Provisional; Region: PRK15063 688245009440 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 688245009441 tetramer interface [polypeptide binding]; other site 688245009442 active site 688245009443 Mg2+/Mn2+ binding site [ion binding]; other site 688245009444 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 688245009445 EamA-like transporter family; Region: EamA; pfam00892 688245009446 EamA-like transporter family; Region: EamA; pfam00892 688245009447 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 688245009448 SWIB/MDM2 domain; Region: SWIB; pfam02201 688245009449 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 688245009450 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 688245009451 non-specific DNA binding site [nucleotide binding]; other site 688245009452 salt bridge; other site 688245009453 sequence-specific DNA binding site [nucleotide binding]; other site 688245009454 transcriptional repressor DicA; Reviewed; Region: PRK09706 688245009455 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 688245009456 non-specific DNA binding site [nucleotide binding]; other site 688245009457 salt bridge; other site 688245009458 sequence-specific DNA binding site [nucleotide binding]; other site 688245009459 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 688245009460 Flavodoxin; Region: Flavodoxin_1; pfam00258 688245009461 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like1; cd06200 688245009462 FAD binding pocket [chemical binding]; other site 688245009463 FAD binding motif [chemical binding]; other site 688245009464 catalytic residues [active] 688245009465 NAD binding pocket [chemical binding]; other site 688245009466 phosphate binding motif [ion binding]; other site 688245009467 beta-alpha-beta structure motif; other site 688245009468 ApbE family; Region: ApbE; pfam02424 688245009469 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 688245009470 Predicted periplasmic protein (DUF2271); Region: DUF2271; cl17856 688245009471 PepSY-associated TM helix; Region: PepSY_TM_1; cl19400 688245009472 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 688245009473 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 688245009474 N-terminal plug; other site 688245009475 ligand-binding site [chemical binding]; other site 688245009476 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 688245009477 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 688245009478 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 688245009479 active site 688245009480 substrate binding site [chemical binding]; other site 688245009481 FMN binding site [chemical binding]; other site 688245009482 putative catalytic residues [active] 688245009483 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 688245009484 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 688245009485 Gram-negative bacterial TonB protein C-terminal; Region: TonB_C; pfam03544 688245009486 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 688245009487 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 688245009488 Hemin uptake protein hemP; Region: hemP; pfam10636 688245009489 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 688245009490 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 688245009491 YccA-like proteins; Region: YccA_like; cd10433 688245009492 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 688245009493 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 688245009494 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 688245009495 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 688245009496 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 688245009497 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 688245009498 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 688245009499 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 688245009500 dimerization interface [polypeptide binding]; other site 688245009501 putative DNA binding site [nucleotide binding]; other site 688245009502 putative Zn2+ binding site [ion binding]; other site 688245009503 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245009504 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 688245009505 NAD(P) binding site [chemical binding]; other site 688245009506 active site 688245009507 DoxX-like family; Region: DoxX_3; pfam13781 688245009508 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 688245009509 PAS domain; Region: PAS_9; pfam13426 688245009510 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 688245009511 putative active site [active] 688245009512 heme pocket [chemical binding]; other site 688245009513 HAMP domain; Region: HAMP; pfam00672 688245009514 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 688245009515 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 688245009516 dimer interface [polypeptide binding]; other site 688245009517 putative CheW interface [polypeptide binding]; other site 688245009518 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 688245009519 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 688245009520 putative DNA binding site [nucleotide binding]; other site 688245009521 putative Zn2+ binding site [ion binding]; other site 688245009522 AsnC family; Region: AsnC_trans_reg; pfam01037 688245009523 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 688245009524 DNA-binding domain of Proline dehydrogenase; Region: Pro_dh-DNA_bdg; pfam14850 688245009525 Proline dehydrogenase; Region: Pro_dh; pfam01619 688245009526 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 688245009527 NAD(P) binding site [chemical binding]; other site 688245009528 catalytic residues [active] 688245009529 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 688245009530 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 688245009531 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245009532 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 688245009533 substrate binding site [chemical binding]; other site 688245009534 dimerization interface [polypeptide binding]; other site 688245009535 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 688245009536 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 688245009537 Walker A/P-loop; other site 688245009538 ATP binding site [chemical binding]; other site 688245009539 Q-loop/lid; other site 688245009540 ABC transporter signature motif; other site 688245009541 Walker B; other site 688245009542 D-loop; other site 688245009543 H-loop/switch region; other site 688245009544 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 688245009545 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 688245009546 dimer interface [polypeptide binding]; other site 688245009547 conserved gate region; other site 688245009548 putative PBP binding loops; other site 688245009549 ABC-ATPase subunit interface; other site 688245009550 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl19096 688245009551 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 688245009552 active site 688245009553 dimer interface [polypeptide binding]; other site 688245009554 non-prolyl cis peptide bond; other site 688245009555 insertion regions; other site 688245009556 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 688245009557 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 688245009558 substrate binding pocket [chemical binding]; other site 688245009559 membrane-bound complex binding site; other site 688245009560 hinge residues; other site 688245009561 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 688245009562 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 688245009563 substrate binding pocket [chemical binding]; other site 688245009564 membrane-bound complex binding site; other site 688245009565 hinge residues; other site 688245009566 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 688245009567 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 688245009568 substrate binding pocket [chemical binding]; other site 688245009569 membrane-bound complex binding site; other site 688245009570 oxidative damage protection protein; Provisional; Region: PRK05408 688245009571 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245009572 metal binding site [ion binding]; metal-binding site 688245009573 active site 688245009574 I-site; other site 688245009575 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 688245009576 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245009577 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 688245009578 dimerization interface [polypeptide binding]; other site 688245009579 substrate binding pocket [chemical binding]; other site 688245009580 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 688245009581 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 688245009582 active site 688245009583 catalytic tetrad [active] 688245009584 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 688245009585 putative hydrophobic ligand binding site [chemical binding]; other site 688245009586 protein interface [polypeptide binding]; other site 688245009587 gate; other site 688245009588 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 688245009589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245009590 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 688245009591 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 688245009592 active site 688245009593 substrate binding site [chemical binding]; other site 688245009594 FMN binding site [chemical binding]; other site 688245009595 putative catalytic residues [active] 688245009596 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 688245009597 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 688245009598 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 688245009599 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 688245009600 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 688245009601 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245009602 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 688245009603 enoyl-CoA hydratase; Provisional; Region: PRK06127 688245009604 substrate binding site [chemical binding]; other site 688245009605 oxyanion hole (OAH) forming residues; other site 688245009606 trimer interface [polypeptide binding]; other site 688245009607 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 688245009608 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 688245009609 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 688245009610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245009611 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 688245009612 dimerization interface [polypeptide binding]; other site 688245009613 substrate binding pocket [chemical binding]; other site 688245009614 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 688245009615 dimer interface [polypeptide binding]; other site 688245009616 NADP binding site [chemical binding]; other site 688245009617 catalytic residues [active] 688245009618 metabolite-proton symporter; Region: 2A0106; TIGR00883 688245009619 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 688245009620 putative substrate translocation pore; other site 688245009621 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 688245009622 putative active site [active] 688245009623 metal binding site [ion binding]; metal-binding site 688245009624 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245009625 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245009626 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 688245009627 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 688245009628 DctM-like transporters; Region: DctM; pfam06808 688245009629 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 688245009630 NIPSNAP; Region: NIPSNAP; pfam07978 688245009631 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 688245009632 active site 688245009633 NAD binding site [chemical binding]; other site 688245009634 metal binding site [ion binding]; metal-binding site 688245009635 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245009636 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245009637 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 688245009638 dimerization interface [polypeptide binding]; other site 688245009639 Phenolic Acid Decarboxylase; Region: PAD; cl01382 688245009640 active site 688245009641 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 688245009642 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 688245009643 active site 688245009644 catalytic tetrad [active] 688245009645 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 688245009646 FMN binding site [chemical binding]; other site 688245009647 active site 688245009648 substrate binding site [chemical binding]; other site 688245009649 catalytic residue [active] 688245009650 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl19096 688245009651 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 688245009652 active site 688245009653 catalytic tetrad [active] 688245009654 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 688245009655 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 688245009656 putative substrate translocation pore; other site 688245009657 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 688245009658 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 688245009659 putative substrate translocation pore; other site 688245009660 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245009661 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245009662 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 688245009663 putative effector binding pocket; other site 688245009664 dimerization interface [polypeptide binding]; other site 688245009665 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 688245009666 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 688245009667 DNA binding residues [nucleotide binding] 688245009668 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245009669 Male sterility protein; Region: NAD_binding_4; pfam07993 688245009670 NAD(P) binding site [chemical binding]; other site 688245009671 active site 688245009672 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 688245009673 Predicted transcriptional regulators [Transcription]; Region: COG1733 688245009674 dimerization interface [polypeptide binding]; other site 688245009675 putative DNA binding site [nucleotide binding]; other site 688245009676 putative Zn2+ binding site [ion binding]; other site 688245009677 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 688245009678 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245009679 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 688245009680 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245009681 DNA-binding site [nucleotide binding]; DNA binding site 688245009682 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 688245009683 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245009684 homodimer interface [polypeptide binding]; other site 688245009685 catalytic residue [active] 688245009686 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 688245009687 homodimer interface [polypeptide binding]; other site 688245009688 catalytic residues [active] 688245009689 NAD binding site [chemical binding]; other site 688245009690 substrate binding pocket [chemical binding]; other site 688245009691 flexible flap; other site 688245009692 Inorganic H+ pyrophosphatase; Region: H_PPase; cl11452 688245009693 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 688245009694 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 688245009695 active site 688245009696 catalytic residues [active] 688245009697 metal binding site [ion binding]; metal-binding site 688245009698 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 688245009699 Secretin and TonB N terminus short domain; Region: STN; smart00965 688245009700 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 688245009701 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 688245009702 N-terminal plug; other site 688245009703 ligand-binding site [chemical binding]; other site 688245009704 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 688245009705 FecR protein; Region: FecR; pfam04773 688245009706 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 688245009707 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 688245009708 DNA binding residues [nucleotide binding] 688245009709 Cupin domain; Region: Cupin_2; cl17218 688245009710 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 688245009711 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245009712 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 688245009713 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 688245009714 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 688245009715 dimer interface [polypeptide binding]; other site 688245009716 active site 688245009717 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 688245009718 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 688245009719 SdiA-regulated; Region: SdiA-regulated; cl19046 688245009720 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 688245009721 trimer interface [polypeptide binding]; other site 688245009722 eyelet of channel; other site 688245009723 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 688245009724 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245009725 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245009726 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245009727 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 688245009728 dimerization interface [polypeptide binding]; other site 688245009729 putative effector binding pocket; other site 688245009730 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 688245009731 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 688245009732 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245009733 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 688245009734 putative substrate translocation pore; other site 688245009735 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 688245009736 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 688245009737 catalytic residues [active] 688245009738 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 688245009739 Citrate transporter; Region: CitMHS; pfam03600 688245009740 transmembrane helices; other site 688245009741 Low molecular weight phosphatase family; Region: LMWPc; cd00115 688245009742 active site 688245009743 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 688245009744 dimerization interface [polypeptide binding]; other site 688245009745 putative DNA binding site [nucleotide binding]; other site 688245009746 putative Zn2+ binding site [ion binding]; other site 688245009747 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 688245009748 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; cd00491 688245009749 active site 1 [active] 688245009750 dimer interface [polypeptide binding]; other site 688245009751 hexamer interface [polypeptide binding]; other site 688245009752 active site 2 [active] 688245009753 Tripartite tricarboxylate transporter family receptor; Region: TctC; pfam03401 688245009754 4-oxalocrotonate decarboxylase; Region: catechol_dmpH; TIGR03218 688245009755 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 688245009756 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 688245009757 active site 688245009758 catalytic residues [active] 688245009759 metal binding site [ion binding]; metal-binding site 688245009760 DmpG-like communication domain; Region: DmpG_comm; pfam07836 688245009761 acetaldehyde dehydrogenase; Validated; Region: PRK08300 688245009762 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 688245009763 Prokaryotic acetaldehyde dehydrogenase, dimerization; Region: AcetDehyd-dimer; pfam09290 688245009764 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 688245009765 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 688245009766 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245009767 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 688245009768 NAD binding site [chemical binding]; other site 688245009769 catalytic residues [active] 688245009770 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 688245009771 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245009772 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the chlorocatechol catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_Chlorocatechol; cd08446 688245009773 dimerization interface [polypeptide binding]; other site 688245009774 putative substrate binding pocket [chemical binding]; other site 688245009775 Domain of unknown function (DUF336); Region: DUF336; pfam03928 688245009776 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 688245009777 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 688245009778 N-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_N; cd07265 688245009779 tetramer interface [polypeptide binding]; other site 688245009780 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 688245009781 active site 688245009782 metal binding site [ion binding]; metal-binding site 688245009783 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 688245009784 catalytic loop [active] 688245009785 iron binding site [ion binding]; other site 688245009786 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 688245009787 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 688245009788 catalytic loop [active] 688245009789 iron binding site [ion binding]; other site 688245009790 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 688245009791 FAD binding pocket [chemical binding]; other site 688245009792 conserved FAD binding motif [chemical binding]; other site 688245009793 phosphate binding motif [ion binding]; other site 688245009794 beta-alpha-beta structure motif; other site 688245009795 NAD binding pocket [chemical binding]; other site 688245009796 Phenol hydroxylase conserved region; Region: Phenol_monoox; pfam04663 688245009797 Aromatic and Alkene Monooxygenase Hydroxylase, subunit A, ferritin-like diiron-binding domain; Region: AAMH_A; cd01057 688245009798 dimerization interface [polypeptide binding]; other site 688245009799 putative path to active site cavity [active] 688245009800 diiron center [ion binding]; other site 688245009801 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 688245009802 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 688245009803 dinuclear metal binding motif [ion binding]; other site 688245009804 Phenol hydroxylase subunit; Region: Phenol_hyd_sub; pfam06099 688245009805 Activator of aromatic catabolism; Region: XylR_N; pfam06505 688245009806 V4R domain; Region: V4R; pfam02830 688245009807 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 688245009808 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 688245009809 Walker A motif; other site 688245009810 ATP binding site [chemical binding]; other site 688245009811 Walker B motif; other site 688245009812 arginine finger; other site 688245009813 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 688245009814 Transcriptional regulators [Transcription]; Region: GntR; COG1802 688245009815 DNA-binding site [nucleotide binding]; DNA binding site 688245009816 Bacterial regulatory proteins, gntR family; Region: GntR; pfam00392 688245009817 FCD domain; Region: FCD; pfam07729 688245009818 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 688245009819 Predicted membrane protein [Function unknown]; Region: COG2860 688245009820 UPF0126 domain; Region: UPF0126; pfam03458 688245009821 UPF0126 domain; Region: UPF0126; pfam03458 688245009822 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 688245009823 Uncharacterized conserved protein [Function unknown]; Region: COG4121 688245009824 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245009825 Domain of unknown function DUF21; Region: DUF21; pfam01595 688245009826 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 688245009827 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 688245009828 Transporter associated domain; Region: CorC_HlyC; smart01091 688245009829 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 688245009830 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 688245009831 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 688245009832 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 688245009833 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 688245009834 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 688245009835 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 688245009836 Active Sites [active] 688245009837 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 688245009838 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 688245009839 Active Sites [active] 688245009840 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 688245009841 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 688245009842 G1 box; other site 688245009843 GTP/Mg2+ binding site [chemical binding]; other site 688245009844 G2 box; other site 688245009845 Switch I region; other site 688245009846 G3 box; other site 688245009847 Switch II region; other site 688245009848 G4 box; other site 688245009849 G5 box; other site 688245009850 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 688245009851 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 688245009852 Ferredoxin [Energy production and conversion]; Region: COG1146 688245009853 4Fe-4S binding domain; Region: Fer4; cl02805 688245009854 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 688245009855 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 688245009856 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 688245009857 xanthine permease; Region: pbuX; TIGR03173 688245009858 Sulfate transporter family; Region: Sulfate_transp; cl19250 688245009859 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 688245009860 active site 688245009861 catalytic residues [active] 688245009862 metal binding site [ion binding]; metal-binding site 688245009863 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245009864 HI0933-like protein; Region: HI0933_like; pfam03486 688245009865 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245009866 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 688245009867 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 688245009868 catalytic residues [active] 688245009869 transcription termination factor Rho; Provisional; Region: rho; PRK09376 688245009870 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 688245009871 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 688245009872 RNA binding site [nucleotide binding]; other site 688245009873 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 688245009874 multimer interface [polypeptide binding]; other site 688245009875 Walker A motif; other site 688245009876 ATP binding site [chemical binding]; other site 688245009877 Walker B motif; other site 688245009878 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 688245009879 Outer membrane efflux protein; Region: OEP; pfam02321 688245009880 Outer membrane efflux protein; Region: OEP; pfam02321 688245009881 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 688245009882 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 688245009883 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245009884 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 688245009885 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 688245009886 Walker A/P-loop; other site 688245009887 ATP binding site [chemical binding]; other site 688245009888 Q-loop/lid; other site 688245009889 ABC transporter signature motif; other site 688245009890 Walker B; other site 688245009891 D-loop; other site 688245009892 H-loop/switch region; other site 688245009893 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 688245009894 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 688245009895 Walker A/P-loop; other site 688245009896 ATP binding site [chemical binding]; other site 688245009897 Q-loop/lid; other site 688245009898 ABC transporter signature motif; other site 688245009899 Walker B; other site 688245009900 D-loop; other site 688245009901 H-loop/switch region; other site 688245009902 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 688245009903 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 688245009904 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; cl19580 688245009905 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 688245009906 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 688245009907 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 688245009908 Acetokinase family; Region: Acetate_kinase; cl17229 688245009909 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 688245009910 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 688245009911 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 688245009912 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 688245009913 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 688245009914 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 688245009915 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 688245009916 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 688245009917 putative efflux protein, MATE family; Region: matE; TIGR00797 688245009918 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 688245009919 PAS domain; Region: PAS; smart00091 688245009920 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 688245009921 dimer interface [polypeptide binding]; other site 688245009922 phosphorylation site [posttranslational modification] 688245009923 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 688245009924 ATP binding site [chemical binding]; other site 688245009925 Mg2+ binding site [ion binding]; other site 688245009926 G-X-G motif; other site 688245009927 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 688245009928 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 688245009929 active site 688245009930 phosphorylation site [posttranslational modification] 688245009931 intermolecular recognition site; other site 688245009932 dimerization interface [polypeptide binding]; other site 688245009933 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 688245009934 DNA binding site [nucleotide binding] 688245009935 transcriptional regulator PhoU; Provisional; Region: PRK11115 688245009936 PhoU domain; Region: PhoU; pfam01895 688245009937 PhoU domain; Region: PhoU; pfam01895 688245009938 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 688245009939 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 688245009940 Walker A/P-loop; other site 688245009941 ATP binding site [chemical binding]; other site 688245009942 Q-loop/lid; other site 688245009943 ABC transporter signature motif; other site 688245009944 Walker B; other site 688245009945 D-loop; other site 688245009946 H-loop/switch region; other site 688245009947 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 688245009948 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 688245009949 dimer interface [polypeptide binding]; other site 688245009950 conserved gate region; other site 688245009951 putative PBP binding loops; other site 688245009952 ABC-ATPase subunit interface; other site 688245009953 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 688245009954 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 688245009955 dimer interface [polypeptide binding]; other site 688245009956 conserved gate region; other site 688245009957 putative PBP binding loops; other site 688245009958 ABC-ATPase subunit interface; other site 688245009959 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 688245009960 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 688245009961 exopolyphosphatase; Region: exo_poly_only; TIGR03706 688245009962 polyphosphate kinase; Provisional; Region: PRK05443 688245009963 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 688245009964 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 688245009965 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 688245009966 putative active site [active] 688245009967 catalytic site [active] 688245009968 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 688245009969 putative active site [active] 688245009970 catalytic site [active] 688245009971 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 688245009972 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 688245009973 active site 688245009974 substrate binding site [chemical binding]; other site 688245009975 metal binding site [ion binding]; metal-binding site 688245009976 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 688245009977 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 688245009978 substrate binding pocket [chemical binding]; other site 688245009979 dimer interface [polypeptide binding]; other site 688245009980 inhibitor binding site; inhibition site 688245009981 FtsH Extracellular; Region: FtsH_ext; pfam06480 688245009982 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 688245009983 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 688245009984 Walker A motif; other site 688245009985 ATP binding site [chemical binding]; other site 688245009986 Walker B motif; other site 688245009987 arginine finger; other site 688245009988 Peptidase family M41; Region: Peptidase_M41; pfam01434 688245009989 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 688245009990 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 688245009991 S-adenosylmethionine binding site [chemical binding]; other site 688245009992 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 688245009993 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 688245009994 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 688245009995 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 688245009996 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 688245009997 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 688245009998 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 688245009999 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 688245010000 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 688245010001 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 688245010002 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 688245010003 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 688245010004 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 688245010005 ATP-grasp domain; Region: ATP-grasp_4; cl17255 688245010006 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 688245010007 IMP binding site; other site 688245010008 dimer interface [polypeptide binding]; other site 688245010009 interdomain contacts; other site 688245010010 partial ornithine binding site; other site 688245010011 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 688245010012 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 688245010013 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 688245010014 catalytic site [active] 688245010015 subunit interface [polypeptide binding]; other site 688245010016 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 688245010017 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 688245010018 Bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 688245010019 RNA/DNA hybrid binding site [nucleotide binding]; other site 688245010020 active site 688245010021 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 688245010022 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 688245010023 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 688245010024 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 688245010025 active site 688245010026 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 688245010027 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 688245010028 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 688245010029 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 688245010030 trimer interface [polypeptide binding]; other site 688245010031 active site 688245010032 UDP-GlcNAc binding site [chemical binding]; other site 688245010033 lipid binding site [chemical binding]; lipid-binding site 688245010034 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 688245010035 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 688245010036 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 688245010037 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 688245010038 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 688245010039 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 688245010040 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 688245010041 Surface antigen; Region: Bac_surface_Ag; pfam01103 688245010042 zinc metallopeptidase RseP; Provisional; Region: PRK10779 688245010043 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 688245010044 active site 688245010045 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 688245010046 protein binding site [polypeptide binding]; other site 688245010047 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 688245010048 putative substrate binding region [chemical binding]; other site 688245010049 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 688245010050 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 688245010051 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 688245010052 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 688245010053 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 688245010054 Cis (Z)-Isoprenyl Diphosphate Synthases; Region: Cis_IPPS; cd00475 688245010055 active site 688245010056 dimer interface [polypeptide binding]; other site 688245010057 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 688245010058 hinge region; other site 688245010059 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 688245010060 putative nucleotide binding site [chemical binding]; other site 688245010061 uridine monophosphate binding site [chemical binding]; other site 688245010062 homohexameric interface [polypeptide binding]; other site 688245010063 elongation factor Ts; Provisional; Region: tsf; PRK09377 688245010064 UBA/TS-N domain; Region: UBA; pfam00627 688245010065 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 688245010066 rRNA interaction site [nucleotide binding]; other site 688245010067 S8 interaction site; other site 688245010068 putative laminin-1 binding site; other site 688245010069 Amidase; Region: Amidase; cl11426 688245010070 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 688245010071 putative substrate binding site [chemical binding]; other site 688245010072 putative ATP binding site [chemical binding]; other site 688245010073 ribonuclease R; Region: RNase_R; TIGR02063 688245010074 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 688245010075 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 688245010076 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 688245010077 RNA binding site [nucleotide binding]; other site 688245010078 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 688245010079 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 688245010080 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 688245010081 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 688245010082 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 688245010083 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 688245010084 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 688245010085 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 688245010086 N-acetyl-D-glucosamine binding site [chemical binding]; other site 688245010087 catalytic residue [active] 688245010088 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 688245010089 dimer interface [polypeptide binding]; other site 688245010090 active site 688245010091 glycine-pyridoxal phosphate binding site [chemical binding]; other site 688245010092 folate binding site [chemical binding]; other site 688245010093 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 688245010094 ATP cone domain; Region: ATP-cone; pfam03477 688245010095 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 688245010096 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 688245010097 putative active site [active] 688245010098 putative metal binding site [ion binding]; other site 688245010099 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 688245010100 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 688245010101 Tetramer interface [polypeptide binding]; other site 688245010102 active site 688245010103 FMN-binding site [chemical binding]; other site 688245010104 FOG: CBS domain [General function prediction only]; Region: COG0517 688245010105 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 688245010106 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 688245010107 homodimer interface [polypeptide binding]; other site 688245010108 substrate-cofactor binding pocket; other site 688245010109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245010110 catalytic residue [active] 688245010111 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 688245010112 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 688245010113 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245010114 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 688245010115 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 688245010116 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245010117 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 688245010118 Protein of unknown function (DUF962); Region: DUF962; pfam06127 688245010119 ribonuclease BN/unknown domain fusion protein; Reviewed; Region: rbn; PRK04214 688245010120 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 688245010121 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 688245010122 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245010123 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245010124 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 688245010125 dimerization interface [polypeptide binding]; other site 688245010126 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 688245010127 FAD binding domain; Region: FAD_binding_4; pfam01565 688245010128 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 688245010129 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 688245010130 dimerization interface [polypeptide binding]; other site 688245010131 active site 688245010132 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 688245010133 folate binding site [chemical binding]; other site 688245010134 NADP+ binding site [chemical binding]; other site 688245010135 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 688245010136 active site 688245010137 metal binding site [ion binding]; metal-binding site 688245010138 Domain of unknown function (DUF333); Region: DUF333; pfam03891 688245010139 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245010140 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245010141 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 688245010142 putative effector binding pocket; other site 688245010143 dimerization interface [polypeptide binding]; other site 688245010144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245010145 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 688245010146 Sulfatase; Region: Sulfatase; cl19157 688245010147 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 688245010148 trimer interface [polypeptide binding]; other site 688245010149 eyelet of channel; other site 688245010150 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 688245010151 putative catalytic site [active] 688245010152 putative phosphate binding site [ion binding]; other site 688245010153 active site 688245010154 metal binding site A [ion binding]; metal-binding site 688245010155 DNA binding site [nucleotide binding] 688245010156 putative AP binding site [nucleotide binding]; other site 688245010157 putative metal binding site B [ion binding]; other site 688245010158 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 688245010159 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 688245010160 active site 688245010161 phosphorylation site [posttranslational modification] 688245010162 intermolecular recognition site; other site 688245010163 dimerization interface [polypeptide binding]; other site 688245010164 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 688245010165 Walker A motif; other site 688245010166 ATP binding site [chemical binding]; other site 688245010167 Walker B motif; other site 688245010168 arginine finger; other site 688245010169 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 688245010170 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 688245010171 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 688245010172 dimer interface [polypeptide binding]; other site 688245010173 phosphorylation site [posttranslational modification] 688245010174 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 688245010175 ATP binding site [chemical binding]; other site 688245010176 Mg2+ binding site [ion binding]; other site 688245010177 G-X-G motif; other site 688245010178 glutamine synthetase; Provisional; Region: glnA; PRK09469 688245010179 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 688245010180 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 688245010181 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 688245010182 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 688245010183 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 688245010184 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 688245010185 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 688245010186 NodB motif; other site 688245010187 active site 688245010188 catalytic site [active] 688245010189 metal binding site [ion binding]; metal-binding site 688245010190 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 688245010191 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 688245010192 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 688245010193 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 688245010194 active site 688245010195 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 688245010196 GDP-binding site [chemical binding]; other site 688245010197 ACT binding site; other site 688245010198 IMP binding site; other site 688245010199 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 688245010200 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 688245010201 dimer interface [polypeptide binding]; other site 688245010202 motif 1; other site 688245010203 active site 688245010204 motif 2; other site 688245010205 motif 3; other site 688245010206 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 688245010207 HflC protein; Region: hflC; TIGR01932 688245010208 High frequency of lysogenization C (HflC) family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_HflC; cd03405 688245010209 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 688245010210 High frequency of lysogenization K (HflK) family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_HflK; cd03404 688245010211 HflK protein; Region: hflK; TIGR01933 688245010212 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 688245010213 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 688245010214 HflX GTPase family; Region: HflX; cd01878 688245010215 G1 box; other site 688245010216 GTP/Mg2+ binding site [chemical binding]; other site 688245010217 Switch I region; other site 688245010218 G2 box; other site 688245010219 G3 box; other site 688245010220 Switch II region; other site 688245010221 G4 box; other site 688245010222 G5 box; other site 688245010223 bacterial Hfq-like; Region: Hfq; cd01716 688245010224 hexamer interface [polypeptide binding]; other site 688245010225 Sm1 motif; other site 688245010226 RNA binding site [nucleotide binding]; other site 688245010227 Sm2 motif; other site 688245010228 GTP-binding protein Der; Reviewed; Region: PRK00093 688245010229 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 688245010230 G1 box; other site 688245010231 GTP/Mg2+ binding site [chemical binding]; other site 688245010232 Switch I region; other site 688245010233 G2 box; other site 688245010234 Switch II region; other site 688245010235 G3 box; other site 688245010236 G4 box; other site 688245010237 G5 box; other site 688245010238 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 688245010239 G1 box; other site 688245010240 GTP/Mg2+ binding site [chemical binding]; other site 688245010241 Switch I region; other site 688245010242 G2 box; other site 688245010243 G3 box; other site 688245010244 Switch II region; other site 688245010245 G4 box; other site 688245010246 G5 box; other site 688245010247 KH-domain-like of EngA bacterial GTPase enzymes, C-terminal; Region: KH_dom-like; pfam14714 688245010248 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 688245010249 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 688245010250 Trp docking motif [polypeptide binding]; other site 688245010251 active site 688245010252 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 688245010253 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 688245010254 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 688245010255 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 688245010256 dimer interface [polypeptide binding]; other site 688245010257 motif 1; other site 688245010258 active site 688245010259 motif 2; other site 688245010260 motif 3; other site 688245010261 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 688245010262 anticodon binding site; other site 688245010263 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 688245010264 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 688245010265 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 688245010266 Helix-turn-helix domain; Region: HTH_25; pfam13413 688245010267 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 688245010268 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 688245010269 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 688245010270 binding surface 688245010271 TPR motif; other site 688245010272 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 688245010273 binding surface 688245010274 TPR motif; other site 688245010275 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 688245010276 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 688245010277 FeS/SAM binding site; other site 688245010278 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 688245010279 active site 688245010280 multimer interface [polypeptide binding]; other site 688245010281 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 688245010282 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 688245010283 RNA binding surface [nucleotide binding]; other site 688245010284 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 688245010285 probable active site [active] 688245010286 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 688245010287 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 688245010288 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 688245010289 RNA binding surface [nucleotide binding]; other site 688245010290 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 688245010291 active site 688245010292 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 688245010293 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 688245010294 Peptidase family M23; Region: Peptidase_M23; pfam01551 688245010295 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 688245010296 S-adenosylmethionine binding site [chemical binding]; other site 688245010297 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 688245010298 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 688245010299 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 688245010300 NAD(P) binding site [chemical binding]; other site 688245010301 PhoD-like phosphatase; Region: PhoD; pfam09423 688245010302 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 688245010303 putative active site [active] 688245010304 putative metal binding site [ion binding]; other site 688245010305 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 688245010306 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 688245010307 putative active site [active] 688245010308 catalytic site [active] 688245010309 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 688245010310 putative active site [active] 688245010311 catalytic site [active] 688245010312 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 688245010313 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 688245010314 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 688245010315 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 688245010316 active site 688245010317 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 688245010318 Predicted esterase [General function prediction only]; Region: COG0400 688245010319 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 688245010320 hypothetical protein; Provisional; Region: PRK09256 688245010321 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245010322 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 688245010323 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 688245010324 trimer interface [polypeptide binding]; other site 688245010325 active site 688245010326 dimer interface [polypeptide binding]; other site 688245010327 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 688245010328 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 688245010329 active site 688245010330 nucleotide binding site [chemical binding]; other site 688245010331 HIGH motif; other site 688245010332 KMSKS motif; other site 688245010333 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 688245010334 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 688245010335 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 688245010336 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 688245010337 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 688245010338 Peptidase family M23; Region: Peptidase_M23; pfam01551 688245010339 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 688245010340 META domain; Region: META; pfam03724 688245010341 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 688245010342 enterobactin exporter EntS; Provisional; Region: PRK10489 688245010343 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 688245010344 putative substrate translocation pore; other site 688245010345 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 688245010346 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl17742 688245010347 Predicted permeases [General function prediction only]; Region: RarD; COG2962 688245010348 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 688245010349 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 688245010350 active site 688245010351 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 688245010352 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 688245010353 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 688245010354 metal binding site [ion binding]; metal-binding site 688245010355 putative dimer interface [polypeptide binding]; other site 688245010356 PAS domain; Region: PAS_9; pfam13426 688245010357 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 688245010358 putative active site [active] 688245010359 heme pocket [chemical binding]; other site 688245010360 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245010361 metal binding site [ion binding]; metal-binding site 688245010362 active site 688245010363 I-site; other site 688245010364 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 688245010365 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 688245010366 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 688245010367 GTP/Mg2+ binding site [chemical binding]; other site 688245010368 G4 box; other site 688245010369 G5 box; other site 688245010370 G1 box; other site 688245010371 Switch I region; other site 688245010372 G2 box; other site 688245010373 G3 box; other site 688245010374 Switch II region; other site 688245010375 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 688245010376 methyl-accepting protein IV; Provisional; Region: PRK09793 688245010377 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 688245010378 dimerization interface [polypeptide binding]; other site 688245010379 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cl19050 688245010380 dimer interface [polypeptide binding]; other site 688245010381 putative CheW interface [polypeptide binding]; other site 688245010382 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 688245010383 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245010384 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 688245010385 NAD(P) binding site [chemical binding]; other site 688245010386 active site 688245010387 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 688245010388 catalytic loop [active] 688245010389 iron binding site [ion binding]; other site 688245010390 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 688245010391 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 688245010392 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 688245010393 dimerization interface [polypeptide binding]; other site 688245010394 active site 688245010395 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 688245010396 homopentamer interface [polypeptide binding]; other site 688245010397 active site 688245010398 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 688245010399 putative RNA binding site [nucleotide binding]; other site 688245010400 aminotransferase; Validated; Region: PRK07337 688245010401 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 688245010402 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245010403 homodimer interface [polypeptide binding]; other site 688245010404 catalytic residue [active] 688245010405 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 688245010406 active site 688245010407 TolQ protein; Region: tolQ; TIGR02796 688245010408 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 688245010409 TolA protein; Region: tolA_full; TIGR02794 688245010410 TonB C terminal; Region: TonB_2; pfam13103 688245010411 hypothetical protein; Reviewed; Region: PRK09588 688245010412 tRNA-splicing ligase RtcB; Region: RtcB; pfam01139 688245010413 peptide chain release factor-like protein; Reviewed; Region: prfH; PRK08179 688245010414 RF-1 domain; Region: RF-1; cl17422 688245010415 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 688245010416 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245010417 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245010418 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 688245010419 dimerization interface [polypeptide binding]; other site 688245010420 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 688245010421 putative protease; Provisional; Region: PRK15452 688245010422 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 688245010423 Transcriptional regulator [Transcription]; Region: IclR; COG1414 688245010424 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 688245010425 Bacterial transcriptional regulator; Region: IclR; pfam01614 688245010426 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245010427 acyl-CoA synthetase; Validated; Region: PRK06188 688245010428 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 688245010429 acyl-activating enzyme (AAE) consensus motif; other site 688245010430 putative AMP binding site [chemical binding]; other site 688245010431 putative active site [active] 688245010432 putative CoA binding site [chemical binding]; other site 688245010433 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 688245010434 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 688245010435 active site 688245010436 oxalacetate binding site [chemical binding]; other site 688245010437 citrylCoA binding site [chemical binding]; other site 688245010438 coenzyme A binding site [chemical binding]; other site 688245010439 catalytic triad [active] 688245010440 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 688245010441 classical (c) SDRs; Region: SDR_c; cd05233 688245010442 NAD(P) binding site [chemical binding]; other site 688245010443 active site 688245010444 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 688245010445 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 688245010446 N-terminal plug; other site 688245010447 ligand-binding site [chemical binding]; other site 688245010448 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 688245010449 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 688245010450 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 688245010451 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 688245010452 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 688245010453 ligand binding site [chemical binding]; other site 688245010454 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 688245010455 substrate binding site [chemical binding]; other site 688245010456 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 688245010457 substrate binding site [chemical binding]; other site 688245010458 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 688245010459 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245010460 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 688245010461 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 688245010462 metal binding site [ion binding]; metal-binding site 688245010463 putative dimer interface [polypeptide binding]; other site 688245010464 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245010465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245010466 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245010467 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245010468 active site 688245010469 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 688245010470 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245010471 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 688245010472 dimerization interface [polypeptide binding]; other site 688245010473 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 688245010474 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 688245010475 Na binding site [ion binding]; other site 688245010476 putative substrate binding site [chemical binding]; other site 688245010477 Transcriptional regulators [Transcription]; Region: GntR; COG1802 688245010478 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245010479 DNA-binding site [nucleotide binding]; DNA binding site 688245010480 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 688245010481 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 688245010482 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245010483 DNA-binding site [nucleotide binding]; DNA binding site 688245010484 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 688245010485 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 688245010486 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 688245010487 active site 688245010488 catalytic site [active] 688245010489 tetramer interface [polypeptide binding]; other site 688245010490 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 688245010491 Ferritin-like domain; Region: Ferritin; pfam00210 688245010492 heme binding site [chemical binding]; other site 688245010493 ferroxidase pore; other site 688245010494 ferroxidase diiron center [ion binding]; other site 688245010495 hypothetical protein; Provisional; Region: PRK11212 688245010496 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 688245010497 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 688245010498 non-specific DNA binding site [nucleotide binding]; other site 688245010499 salt bridge; other site 688245010500 sequence-specific DNA binding site [nucleotide binding]; other site 688245010501 FCD domain; Region: FCD; pfam07729 688245010502 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 688245010503 trimer interface [polypeptide binding]; other site 688245010504 eyelet of channel; other site 688245010505 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245010506 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 688245010507 extended (e) SDRs; Region: SDR_e; cd08946 688245010508 NAD(P) binding site [chemical binding]; other site 688245010509 active site 688245010510 substrate binding site [chemical binding]; other site 688245010511 Prolyl oligopeptidase family; Region: Peptidase_S9; cl19144 688245010512 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 688245010513 homotrimer interaction site [polypeptide binding]; other site 688245010514 putative active site [active] 688245010515 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 688245010516 FAD binding domain; Region: FAD_binding_4; pfam01565 688245010517 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 688245010518 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245010519 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 688245010520 Aconitate B N-terminal domain; Region: Aconitase_B_N; pfam11791 688245010521 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 688245010522 substrate binding site [chemical binding]; other site 688245010523 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 688245010524 substrate binding site [chemical binding]; other site 688245010525 ligand binding site [chemical binding]; other site 688245010526 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 688245010527 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 688245010528 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 688245010529 S-adenosylmethionine binding site [chemical binding]; other site 688245010530 malate dehydrogenase; Provisional; Region: PRK05442 688245010531 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 688245010532 NAD(P) binding site [chemical binding]; other site 688245010533 dimer interface [polypeptide binding]; other site 688245010534 malate binding site [chemical binding]; other site 688245010535 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 688245010536 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245010537 DNA-binding site [nucleotide binding]; DNA binding site 688245010538 UTRA domain; Region: UTRA; pfam07702 688245010539 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 688245010540 Iron-sulfur protein interface; other site 688245010541 proximal quinone binding site [chemical binding]; other site 688245010542 SdhD (CybS) interface [polypeptide binding]; other site 688245010543 proximal heme binding site [chemical binding]; other site 688245010544 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 688245010545 SdhC subunit interface [polypeptide binding]; other site 688245010546 proximal heme binding site [chemical binding]; other site 688245010547 cardiolipin binding site; other site 688245010548 Iron-sulfur protein interface; other site 688245010549 proximal quinone binding site [chemical binding]; other site 688245010550 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 688245010551 L-aspartate oxidase; Provisional; Region: PRK06175 688245010552 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 688245010553 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 688245010554 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 688245010555 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 688245010556 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 688245010557 dimer interface [polypeptide binding]; other site 688245010558 active site 688245010559 citrylCoA binding site [chemical binding]; other site 688245010560 NADH binding [chemical binding]; other site 688245010561 cationic pore residues; other site 688245010562 oxalacetate/citrate binding site [chemical binding]; other site 688245010563 coenzyme A binding site [chemical binding]; other site 688245010564 catalytic triad [active] 688245010565 SnoaL-like domain; Region: SnoaL_2; pfam12680 688245010566 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 688245010567 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 688245010568 NADP binding site [chemical binding]; other site 688245010569 dimer interface [polypeptide binding]; other site 688245010570 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 688245010571 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 688245010572 ATP binding site [chemical binding]; other site 688245010573 Mg++ binding site [ion binding]; other site 688245010574 motif III; other site 688245010575 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 688245010576 nucleotide binding region [chemical binding]; other site 688245010577 ATP-binding site [chemical binding]; other site 688245010578 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 688245010579 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 688245010580 Part of AAA domain; Region: AAA_19; pfam13245 688245010581 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 688245010582 AAA domain; Region: AAA_12; pfam13087 688245010583 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 688245010584 putative active site [active] 688245010585 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 688245010586 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 688245010587 non-specific DNA binding site [nucleotide binding]; other site 688245010588 salt bridge; other site 688245010589 sequence-specific DNA binding site [nucleotide binding]; other site 688245010590 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 688245010591 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 688245010592 conserved cys residue [active] 688245010593 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245010594 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 688245010595 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 688245010596 substrate binding site [chemical binding]; other site 688245010597 catalytic Zn binding site [ion binding]; other site 688245010598 NAD binding site [chemical binding]; other site 688245010599 structural Zn binding site [ion binding]; other site 688245010600 dimer interface [polypeptide binding]; other site 688245010601 Predicted esterase [General function prediction only]; Region: COG0627 688245010602 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819; cl19187 688245010603 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 688245010604 Cupin domain; Region: Cupin_2; cl17218 688245010605 Uncharacterized conserved protein [Function unknown]; Region: COG1359 688245010606 phenol 2-monooxygenase; Provisional; Region: PRK08294 688245010607 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245010608 FAD-dependent Phenol hydoxylase (PHOX) family, C-terminal TRX-fold domain; composed of proteins similar to PHOX from the aerobic topsoil yeast Trichosporon cutaneum. PHOX is a flavoprotein monooxygenase that catalyzes the hydroxylation of phenol and...; Region: PHOX_C; cd02979 688245010609 dimer interface [polypeptide binding]; other site 688245010610 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245010611 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 688245010612 phosphonoacetaldehyde hydrolase; Region: phosphonatase; TIGR01422 688245010613 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 688245010614 motif II; other site 688245010615 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 688245010616 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 688245010617 active site 688245010618 NAD binding site [chemical binding]; other site 688245010619 metal binding site [ion binding]; metal-binding site 688245010620 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 688245010621 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 688245010622 dimer interface [polypeptide binding]; other site 688245010623 conserved gate region; other site 688245010624 putative PBP binding loops; other site 688245010625 ABC-ATPase subunit interface; other site 688245010626 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 688245010627 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 688245010628 Walker A/P-loop; other site 688245010629 ATP binding site [chemical binding]; other site 688245010630 Q-loop/lid; other site 688245010631 ABC transporter signature motif; other site 688245010632 Walker B; other site 688245010633 D-loop; other site 688245010634 H-loop/switch region; other site 688245010635 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 688245010636 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 688245010637 substrate binding pocket [chemical binding]; other site 688245010638 membrane-bound complex binding site; other site 688245010639 hinge residues; other site 688245010640 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 688245010641 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245010642 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 688245010643 dimerization interface [polypeptide binding]; other site 688245010644 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245010645 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 688245010646 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 688245010647 FeS/SAM binding site; other site 688245010648 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 688245010649 Rnk N-terminus; Region: Rnk_N; pfam14760 688245010650 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 688245010651 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 688245010652 Predicted transcriptional regulators [Transcription]; Region: COG1510 688245010653 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 688245010654 dimerization interface [polypeptide binding]; other site 688245010655 putative DNA binding site [nucleotide binding]; other site 688245010656 putative Zn2+ binding site [ion binding]; other site 688245010657 Transcriptional regulators [Transcription]; Region: PurR; COG1609 688245010658 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 688245010659 DNA binding site [nucleotide binding] 688245010660 domain linker motif; other site 688245010661 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 688245010662 putative ligand binding site [chemical binding]; other site 688245010663 putative dimerization interface [polypeptide binding]; other site 688245010664 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 688245010665 AAA domain; Region: AAA_33; pfam13671 688245010666 ATP-binding site [chemical binding]; other site 688245010667 Gluconate-6-phosphate binding site [chemical binding]; other site 688245010668 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 688245010669 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 688245010670 DctM-like transporters; Region: DctM; pfam06808 688245010671 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 688245010672 phosphogluconate dehydratase; Validated; Region: PRK09054 688245010673 Entner-Doudoroff aldolase; Region: eda; TIGR01182 688245010674 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 688245010675 active site 688245010676 intersubunit interface [polypeptide binding]; other site 688245010677 catalytic residue [active] 688245010678 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 688245010679 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 688245010680 Cytochrome oxidase subunit II; Region: Cyto_ox_2; cl12219 688245010681 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 688245010682 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 688245010683 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245010684 Walker A/P-loop; other site 688245010685 ATP binding site [chemical binding]; other site 688245010686 Q-loop/lid; other site 688245010687 ABC transporter signature motif; other site 688245010688 Walker B; other site 688245010689 D-loop; other site 688245010690 H-loop/switch region; other site 688245010691 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 688245010692 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 688245010693 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245010694 Walker A/P-loop; other site 688245010695 ATP binding site [chemical binding]; other site 688245010696 Q-loop/lid; other site 688245010697 ABC transporter signature motif; other site 688245010698 Walker B; other site 688245010699 D-loop; other site 688245010700 H-loop/switch region; other site 688245010701 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 688245010702 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 688245010703 FMN binding site [chemical binding]; other site 688245010704 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 688245010705 putative ligand binding site [chemical binding]; other site 688245010706 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 688245010707 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 688245010708 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 688245010709 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 688245010710 Ligand binding site [chemical binding]; other site 688245010711 enoyl-CoA hydratase; Validated; Region: PRK08139 688245010712 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 688245010713 substrate binding site [chemical binding]; other site 688245010714 oxyanion hole (OAH) forming residues; other site 688245010715 trimer interface [polypeptide binding]; other site 688245010716 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 688245010717 putative active site [active] 688245010718 Zn binding site [ion binding]; other site 688245010719 MoxR-like ATPases [General function prediction only]; Region: COG0714 688245010720 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 688245010721 Walker A motif; other site 688245010722 ATP binding site [chemical binding]; other site 688245010723 Walker B motif; other site 688245010724 arginine finger; other site 688245010725 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 688245010726 Protein of unknown function DUF58; Region: DUF58; pfam01882 688245010727 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 688245010728 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 688245010729 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 688245010730 murein hydrolase B; Provisional; Region: PRK10760 688245010731 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 688245010732 N-acetyl-D-glucosamine binding site [chemical binding]; other site 688245010733 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 688245010734 putative ligand binding site [chemical binding]; other site 688245010735 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 688245010736 This domain family includes the alpha-crystallin domain (ACD) of alpha-crystallin-type small heat shock proteins (sHsps) and a similar domain found in p23-like proteins. sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa; Region: ACD_sHsps_p23-like; cd00298 688245010737 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 688245010738 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 688245010739 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 688245010740 UGMP family protein; Validated; Region: PRK09604 688245010741 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 688245010742 FOG: CBS domain [General function prediction only]; Region: COG0517 688245010743 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 688245010744 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 688245010745 trimer interface [polypeptide binding]; other site 688245010746 eyelet of channel; other site 688245010747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245010748 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 688245010749 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 688245010750 NAD(P) binding site [chemical binding]; other site 688245010751 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245010752 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245010753 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 688245010754 dimerization interface [polypeptide binding]; other site 688245010755 substrate binding pocket [chemical binding]; other site 688245010756 glycosyl transferase family protein; Provisional; Region: PRK08136 688245010757 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 688245010758 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 688245010759 active site 688245010760 SAM binding site [chemical binding]; other site 688245010761 homodimer interface [polypeptide binding]; other site 688245010762 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 688245010763 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 688245010764 HI0933-like protein; Region: HI0933_like; pfam03486 688245010765 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245010766 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 688245010767 putative ligand binding site [chemical binding]; other site 688245010768 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 688245010769 Yqey-like protein; Region: YqeY; pfam09424 688245010770 transcriptional activator TtdR; Provisional; Region: PRK09801 688245010771 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245010772 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_9; cd08479 688245010773 putative effector binding pocket; other site 688245010774 putative dimerization interface [polypeptide binding]; other site 688245010775 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 688245010776 Uncharacterized conserved protein [Function unknown]; Region: COG5649 688245010777 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 688245010778 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245010779 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 688245010780 dimerization interface [polypeptide binding]; other site 688245010781 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245010782 galactarate dehydratase; Region: galactar-dH20; TIGR03248 688245010783 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 688245010784 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 688245010785 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 688245010786 tetramerization interface [polypeptide binding]; other site 688245010787 NAD(P) binding site [chemical binding]; other site 688245010788 catalytic residues [active] 688245010789 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 688245010790 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 688245010791 putative active site [active] 688245010792 cyclic-di-GMP phosphodiesterase; Provisional; Region: PRK11359 688245010793 heme pocket [chemical binding]; other site 688245010794 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 688245010795 putative active site [active] 688245010796 heme pocket [chemical binding]; other site 688245010797 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 688245010798 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245010799 metal binding site [ion binding]; metal-binding site 688245010800 active site 688245010801 I-site; other site 688245010802 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 688245010803 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 688245010804 EamA-like transporter family; Region: EamA; pfam00892 688245010805 EamA-like transporter family; Region: EamA; pfam00892 688245010806 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 688245010807 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl19356 688245010808 Protein of unknown function (DUF615); Region: DUF615; pfam04751 688245010809 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 688245010810 MPT binding site; other site 688245010811 trimer interface [polypeptide binding]; other site 688245010812 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 688245010813 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 688245010814 putative ligand binding site [chemical binding]; other site 688245010815 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 688245010816 ThiC-associated domain; Region: ThiC-associated; pfam13667 688245010817 ThiC family; Region: ThiC; pfam01964 688245010818 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 688245010819 FMN binding site [chemical binding]; other site 688245010820 dimer interface [polypeptide binding]; other site 688245010821 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 688245010822 putative ligand binding site [chemical binding]; other site 688245010823 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 688245010824 FMN binding site [chemical binding]; other site 688245010825 dimer interface [polypeptide binding]; other site 688245010826 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 688245010827 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 688245010828 trimer interface [polypeptide binding]; other site 688245010829 active site 688245010830 substrate binding site [chemical binding]; other site 688245010831 CoA binding site [chemical binding]; other site 688245010832 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 688245010833 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 688245010834 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 688245010835 active site 688245010836 dimerization interface [polypeptide binding]; other site 688245010837 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 688245010838 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 688245010839 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 688245010840 MutS domain I; Region: MutS_I; pfam01624 688245010841 MutS domain II; Region: MutS_II; pfam05188 688245010842 MutS domain III; Region: MutS_III; pfam05192 688245010843 MutS domain V; Region: MutS_V; pfam00488 688245010844 Walker A/P-loop; other site 688245010845 ATP binding site [chemical binding]; other site 688245010846 Q-loop/lid; other site 688245010847 ABC transporter signature motif; other site 688245010848 Walker B; other site 688245010849 D-loop; other site 688245010850 H-loop/switch region; other site 688245010851 Cache domain; Region: Cache_1; pfam02743 688245010852 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 688245010853 dimerization interface [polypeptide binding]; other site 688245010854 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 688245010855 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 688245010856 dimer interface [polypeptide binding]; other site 688245010857 putative CheW interface [polypeptide binding]; other site 688245010858 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 688245010859 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 688245010860 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245010861 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 688245010862 psiF repeat; Region: PsiF_repeat; pfam07769 688245010863 psiF repeat; Region: PsiF_repeat; pfam07769 688245010864 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 688245010865 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 688245010866 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 688245010867 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 688245010868 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 688245010869 N-terminal plug; other site 688245010870 ligand-binding site [chemical binding]; other site 688245010871 Predicted membrane protein (DUF2306); Region: DUF2306; pfam10067 688245010872 2TM domain; Region: 2TM; pfam13239 688245010873 Histidine kinase; Region: His_kinase; pfam06580 688245010874 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 688245010875 ATP binding site [chemical binding]; other site 688245010876 Mg2+ binding site [ion binding]; other site 688245010877 G-X-G motif; other site 688245010878 two-component response regulator; Provisional; Region: PRK14084 688245010879 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 688245010880 active site 688245010881 phosphorylation site [posttranslational modification] 688245010882 intermolecular recognition site; other site 688245010883 dimerization interface [polypeptide binding]; other site 688245010884 LytTr DNA-binding domain; Region: LytTR; smart00850 688245010885 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245010886 Walker A/P-loop; other site 688245010887 ATP binding site [chemical binding]; other site 688245010888 Q-loop/lid; other site 688245010889 ABC transporter signature motif; other site 688245010890 Walker B; other site 688245010891 D-loop; other site 688245010892 H-loop/switch region; other site 688245010893 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 688245010894 putative hydrophobic ligand binding site [chemical binding]; other site 688245010895 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 688245010896 Outer membrane efflux protein; Region: OEP; pfam02321 688245010897 Outer membrane efflux protein; Region: OEP; pfam02321 688245010898 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 688245010899 MMPL family; Region: MMPL; cl14618 688245010900 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 688245010901 MMPL family; Region: MMPL; cl14618 688245010902 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 688245010903 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 688245010904 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245010905 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 688245010906 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 688245010907 putative hydrophobic ligand binding site [chemical binding]; other site 688245010908 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 688245010909 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 688245010910 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 688245010911 metal ion-dependent adhesion site (MIDAS); other site 688245010912 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 688245010913 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 688245010914 Walker A motif; other site 688245010915 ATP binding site [chemical binding]; other site 688245010916 Walker B motif; other site 688245010917 arginine finger; other site 688245010918 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 688245010919 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 688245010920 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 688245010921 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 688245010922 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 688245010923 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 688245010924 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 688245010925 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 688245010926 catalytic loop [active] 688245010927 iron binding site [ion binding]; other site 688245010928 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 688245010929 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 688245010930 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 688245010931 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 688245010932 DctM-like transporters; Region: DctM; pfam06808 688245010933 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; cl01046 688245010934 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 688245010935 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 688245010936 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 688245010937 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 688245010938 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 688245010939 TPP-binding site; other site 688245010940 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 688245010941 PYR/PP interface [polypeptide binding]; other site 688245010942 dimer interface [polypeptide binding]; other site 688245010943 TPP binding site [chemical binding]; other site 688245010944 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 688245010945 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 688245010946 substrate binding pocket [chemical binding]; other site 688245010947 chain length determination region; other site 688245010948 substrate-Mg2+ binding site; other site 688245010949 catalytic residues [active] 688245010950 aspartate-rich region 1; other site 688245010951 active site lid residues [active] 688245010952 aspartate-rich region 2; other site 688245010953 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 688245010954 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 688245010955 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 688245010956 [2Fe-2S] cluster binding site [ion binding]; other site 688245010957 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 688245010958 alpha subunit interface [polypeptide binding]; other site 688245010959 active site 688245010960 substrate binding site [chemical binding]; other site 688245010961 Fe binding site [ion binding]; other site 688245010962 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 688245010963 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 688245010964 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 688245010965 active site residue [active] 688245010966 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 688245010967 active site residue [active] 688245010968 Flagellar transcriptional activator (FlhD); Region: FlhD; pfam05247 688245010969 transcriptional activator FlhC; Provisional; Region: PRK12722 688245010970 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 688245010971 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 688245010972 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 688245010973 domain interfaces; other site 688245010974 active site 688245010975 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 688245010976 active site 688245010977 HemX; Region: HemX; cl19375 688245010978 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 688245010979 Cytochrome c; Region: Cytochrom_C; pfam00034 688245010980 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 688245010981 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 688245010982 Cytochrome c; Region: Cytochrom_C; pfam00034 688245010983 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 688245010984 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 688245010985 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 688245010986 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 688245010987 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 688245010988 Uncharacterized conserved protein [Function unknown]; Region: COG2353 688245010989 Uncharacterized conserved protein [Function unknown]; Region: COG2353 688245010990 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 688245010991 Zn binding site [ion binding]; other site 688245010992 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 688245010993 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 688245010994 active site 688245010995 HIGH motif; other site 688245010996 KMSKS motif; other site 688245010997 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 688245010998 tRNA binding surface [nucleotide binding]; other site 688245010999 anticodon binding site; other site 688245011000 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 688245011001 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 688245011002 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 688245011003 active site 688245011004 tetramer interface; other site 688245011005 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 688245011006 CPxP motif; other site 688245011007 Nudix N-terminal; Region: Nudix_N_2; pfam14803 688245011008 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 688245011009 nudix motif; other site 688245011010 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 688245011011 cysteine synthase; Region: PLN02565 688245011012 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 688245011013 dimer interface [polypeptide binding]; other site 688245011014 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245011015 catalytic residue [active] 688245011016 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 688245011017 Catalytic site [active] 688245011018 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 688245011019 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 688245011020 active site 688245011021 DNA binding site [nucleotide binding] 688245011022 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 688245011023 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 688245011024 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 688245011025 catalytic residues [active] 688245011026 Adenovirus hexon-associated protein (IX); Region: Adeno_PIX; pfam03955 688245011027 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 688245011028 Putative phage tail protein; Region: Phage-tail_3; pfam13550 688245011029 NlpC/P60 family; Region: NLPC_P60; cl17555 688245011030 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 688245011031 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 688245011032 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 688245011033 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 688245011034 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 688245011035 Phage-related minor tail protein [Function unknown]; Region: COG5281 688245011036 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 688245011037 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; cl19901 688245011038 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 688245011039 Phage tail protein; Region: Phage_tail_3; pfam08813 688245011040 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 688245011041 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 688245011042 oligomer interface [polypeptide binding]; other site 688245011043 active site residues [active] 688245011044 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 688245011045 Mor transcription activator family; Region: Mor; cl02360 688245011046 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 688245011047 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 688245011048 Protein of unknown function (DUF1376); Region: DUF1376; pfam07120 688245011049 Plant protein of unknown function (DUF822); Region: DUF822; pfam05687 688245011050 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 688245011051 Predicted transcriptional regulator [Transcription]; Region: COG2932 688245011052 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 688245011053 Catalytic site [active] 688245011054 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 688245011055 Short C-terminal domain; Region: SHOCT; pfam09851 688245011056 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cl19048 688245011057 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; cl02331 688245011058 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 688245011059 active site 688245011060 Restriction alleviation protein Lar; Region: Lar_restr_allev; pfam14354 688245011061 Vacuolar (H+)-ATPase G subunit; Region: V-ATPase_G; cl03922 688245011062 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 688245011063 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 688245011064 active site 688245011065 DNA binding site [nucleotide binding] 688245011066 Int/Topo IB signature motif; other site 688245011067 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 688245011068 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl17818 688245011069 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 688245011070 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 688245011071 active site 688245011072 phosphorylation site [posttranslational modification] 688245011073 intermolecular recognition site; other site 688245011074 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 688245011075 DNA binding residues [nucleotide binding] 688245011076 dimerization interface [polypeptide binding]; other site 688245011077 GcrA cell cycle regulator; Region: GcrA; cl11564 688245011078 LrgA family; Region: LrgA; pfam03788 688245011079 LrgB-like family; Region: LrgB; pfam04172 688245011080 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 688245011081 EamA-like transporter family; Region: EamA; pfam00892 688245011082 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245011083 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245011084 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 688245011085 putative effector binding pocket; other site 688245011086 dimerization interface [polypeptide binding]; other site 688245011087 Putative transcription activator [Transcription]; Region: TenA; COG0819 688245011088 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 688245011089 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245011090 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 688245011091 dimerization interface [polypeptide binding]; other site 688245011092 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 688245011093 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 688245011094 FAD binding site [chemical binding]; other site 688245011095 substrate binding pocket [chemical binding]; other site 688245011096 catalytic base [active] 688245011097 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 688245011098 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245011099 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 688245011100 trimer interface [polypeptide binding]; other site 688245011101 eyelet of channel; other site 688245011102 putative arabinose transporter; Provisional; Region: PRK03545 688245011103 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 688245011104 putative substrate translocation pore; other site 688245011105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245011106 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 688245011107 NAD(P) binding site [chemical binding]; other site 688245011108 active site 688245011109 transcriptional regulator; Provisional; Region: PRK10632 688245011110 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245011111 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 688245011112 putative effector binding pocket; other site 688245011113 dimerization interface [polypeptide binding]; other site 688245011114 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 688245011115 dimerization interface [polypeptide binding]; other site 688245011116 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 688245011117 ligand binding site [chemical binding]; other site 688245011118 lumazine synthase and riboflavin synthase; involved in the riboflavin (vitamin B2) biosynthetic pathway; Region: Lumazine_synthase-like; cl00317 688245011119 active site 688245011120 homopentamer interface [polypeptide binding]; other site 688245011121 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 688245011122 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 688245011123 putative NAD(P) binding site [chemical binding]; other site 688245011124 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 688245011125 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 688245011126 catalytic loop [active] 688245011127 iron binding site [ion binding]; other site 688245011128 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 688245011129 FAD binding pocket [chemical binding]; other site 688245011130 FAD binding motif [chemical binding]; other site 688245011131 phosphate binding motif [ion binding]; other site 688245011132 beta-alpha-beta structure motif; other site 688245011133 NAD binding pocket [chemical binding]; other site 688245011134 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245011135 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 688245011136 catalytic center binding site [active] 688245011137 ATP binding site [chemical binding]; other site 688245011138 poly(A) polymerase; Region: pcnB; TIGR01942 688245011139 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 688245011140 active site 688245011141 NTP binding site [chemical binding]; other site 688245011142 metal binding triad [ion binding]; metal-binding site 688245011143 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 688245011144 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 688245011145 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 688245011146 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 688245011147 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 688245011148 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 688245011149 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 688245011150 dimerization interface [polypeptide binding]; other site 688245011151 putative ATP binding site [chemical binding]; other site 688245011152 Domain of unknown function DUF20; Region: UPF0118; cl00465 688245011153 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 688245011154 Tetratricopeptide repeat; Region: TPR_9; pfam13371 688245011155 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 688245011156 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 688245011157 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 688245011158 malate:quinone oxidoreductase; Validated; Region: PRK05257 688245011159 Predicted dehydrogenase [General function prediction only]; Region: COG0579 688245011160 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 688245011161 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 688245011162 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 688245011163 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 688245011164 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 688245011165 inhibitor-cofactor binding pocket; inhibition site 688245011166 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245011167 catalytic residue [active] 688245011168 ornithine carbamoyltransferase; Provisional; Region: PRK00779 688245011169 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 688245011170 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 688245011171 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 688245011172 Virus attachment protein p12 family; Region: P12; pfam12669 688245011173 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 688245011174 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 688245011175 G1 box; other site 688245011176 GTP/Mg2+ binding site [chemical binding]; other site 688245011177 Switch I region; other site 688245011178 G2 box; other site 688245011179 G3 box; other site 688245011180 Switch II region; other site 688245011181 G4 box; other site 688245011182 G5 box; other site 688245011183 Nucleoside recognition; Region: Gate; pfam07670 688245011184 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 688245011185 Nucleoside recognition; Region: Gate; pfam07670 688245011186 FeoA domain; Region: FeoA; pfam04023 688245011187 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 688245011188 active site 688245011189 LysE type translocator; Region: LysE; cl00565 688245011190 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 688245011191 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 688245011192 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245011193 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 688245011194 Putative cyclase; Region: Cyclase; cl00814 688245011195 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; cl18945 688245011196 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 688245011197 catalytic residue [active] 688245011198 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 688245011199 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 688245011200 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 688245011201 non-specific DNA binding site [nucleotide binding]; other site 688245011202 salt bridge; other site 688245011203 sequence-specific DNA binding site [nucleotide binding]; other site 688245011204 Cupin domain; Region: Cupin_2; pfam07883 688245011205 AlkA N-terminal domain; Region: AlkA_N; cl05528 688245011206 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 688245011207 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 688245011208 minor groove reading motif; other site 688245011209 helix-hairpin-helix signature motif; other site 688245011210 substrate binding pocket [chemical binding]; other site 688245011211 active site 688245011212 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245011213 Helix-turn-helix domain; Region: HTH_18; pfam12833 688245011214 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 688245011215 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 688245011216 DNA binding site [nucleotide binding] 688245011217 active site 688245011218 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 688245011219 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 688245011220 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245011221 putative substrate translocation pore; other site 688245011222 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 688245011223 Squalene epoxidase; Region: SE; cl17314 688245011224 H-NS histone family; Region: Histone_HNS; pfam00816 688245011225 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 688245011226 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 688245011227 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 688245011228 active site 688245011229 metal binding site [ion binding]; metal-binding site 688245011230 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 688245011231 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 688245011232 ATP binding site [chemical binding]; other site 688245011233 Mg++ binding site [ion binding]; other site 688245011234 motif III; other site 688245011235 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 688245011236 nucleotide binding region [chemical binding]; other site 688245011237 ATP-binding site [chemical binding]; other site 688245011238 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl19825 688245011239 ornithine cyclodeaminase; Validated; Region: PRK07340 688245011240 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 688245011241 quinolinate synthetase; Provisional; Region: PRK09375 688245011242 L-aspartate oxidase; Provisional; Region: PRK06175 688245011243 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 688245011244 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 688245011245 trimer interface [polypeptide binding]; other site 688245011246 active site 688245011247 guanine deaminase; Provisional; Region: PRK09228 688245011248 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 688245011249 active site 688245011250 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 688245011251 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245011252 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 688245011253 dimerization interface [polypeptide binding]; other site 688245011254 substrate binding pocket [chemical binding]; other site 688245011255 carbon starvation induced protein; Validated; Region: PRK02963 688245011256 substrate binding pocket [chemical binding]; other site 688245011257 active site 688245011258 iron coordination sites [ion binding]; other site 688245011259 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 688245011260 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 688245011261 active site 688245011262 substrate binding site [chemical binding]; other site 688245011263 FMN binding site [chemical binding]; other site 688245011264 putative catalytic residues [active] 688245011265 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 688245011266 HIT family signature motif; other site 688245011267 catalytic residue [active] 688245011268 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 688245011269 active site 688245011270 purine riboside binding site [chemical binding]; other site 688245011271 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 688245011272 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 688245011273 [2Fe-2S] cluster binding site [ion binding]; other site 688245011274 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 688245011275 hydrophobic ligand binding site; other site 688245011276 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 688245011277 putative ligand binding site [chemical binding]; other site 688245011278 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 688245011279 putative ligand binding site [chemical binding]; other site 688245011280 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 688245011281 TM-ABC transporter signature motif; other site 688245011282 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 688245011283 TM-ABC transporter signature motif; other site 688245011284 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 688245011285 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 688245011286 Walker A/P-loop; other site 688245011287 ATP binding site [chemical binding]; other site 688245011288 Q-loop/lid; other site 688245011289 ABC transporter signature motif; other site 688245011290 Walker B; other site 688245011291 D-loop; other site 688245011292 H-loop/switch region; other site 688245011293 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 688245011294 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245011295 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245011296 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 688245011297 dimerization interface [polypeptide binding]; other site 688245011298 PAS domain; Region: PAS_9; pfam13426 688245011299 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 688245011300 putative active site [active] 688245011301 heme pocket [chemical binding]; other site 688245011302 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245011303 metal binding site [ion binding]; metal-binding site 688245011304 active site 688245011305 I-site; other site 688245011306 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 688245011307 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 688245011308 ligand binding site [chemical binding]; other site 688245011309 flexible hinge region; other site 688245011310 putative switch regulator; other site 688245011311 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 688245011312 non-specific DNA interactions [nucleotide binding]; other site 688245011313 DNA binding site [nucleotide binding] 688245011314 sequence specific DNA binding site [nucleotide binding]; other site 688245011315 putative cAMP binding site [chemical binding]; other site 688245011316 Secretin and TonB N terminus short domain; Region: STN; smart00965 688245011317 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 688245011318 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 688245011319 N-terminal plug; other site 688245011320 ligand-binding site [chemical binding]; other site 688245011321 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 688245011322 FecR protein; Region: FecR; pfam04773 688245011323 RNA polymerase sigma factor FecI; Provisional; Region: PRK09651 688245011324 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 688245011325 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 688245011326 DNA binding residues [nucleotide binding] 688245011327 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 688245011328 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 688245011329 N-terminal plug; other site 688245011330 ligand-binding site [chemical binding]; other site 688245011331 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 688245011332 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 688245011333 putative ligand binding residues [chemical binding]; other site 688245011334 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 688245011335 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 688245011336 Walker A/P-loop; other site 688245011337 ATP binding site [chemical binding]; other site 688245011338 Q-loop/lid; other site 688245011339 ABC transporter signature motif; other site 688245011340 Walker B; other site 688245011341 D-loop; other site 688245011342 H-loop/switch region; other site 688245011343 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 688245011344 ABC-ATPase subunit interface; other site 688245011345 dimer interface [polypeptide binding]; other site 688245011346 putative PBP binding regions; other site 688245011347 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 688245011348 ABC-ATPase subunit interface; other site 688245011349 dimer interface [polypeptide binding]; other site 688245011350 putative PBP binding regions; other site 688245011351 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 688245011352 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245011353 Walker A/P-loop; other site 688245011354 ATP binding site [chemical binding]; other site 688245011355 Q-loop/lid; other site 688245011356 ABC transporter signature motif; other site 688245011357 Walker B; other site 688245011358 D-loop; other site 688245011359 H-loop/switch region; other site 688245011360 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245011361 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 688245011362 Walker A/P-loop; other site 688245011363 ATP binding site [chemical binding]; other site 688245011364 Q-loop/lid; other site 688245011365 ABC transporter signature motif; other site 688245011366 Walker B; other site 688245011367 D-loop; other site 688245011368 H-loop/switch region; other site 688245011369 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 688245011370 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 688245011371 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 688245011372 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 688245011373 Predicted flavin-nucleotide-binding protein structurally related to pyridoxine 5'-phosphate oxidase [General function prediction only]; Region: COG3576 688245011374 Helix-turn-helix domain; Region: HTH_18; pfam12833 688245011375 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245011376 Predicted membrane protein [Function unknown]; Region: COG3748 688245011377 Protein of unknown function (DUF989); Region: DUF989; pfam06181 688245011378 Cytochrome c; Region: Cytochrom_C; pfam00034 688245011379 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 688245011380 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 688245011381 XdhC Rossmann domain; Region: XdhC_C; pfam13478 688245011382 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 688245011383 putative amphipathic alpha helix; other site 688245011384 DoxX; Region: DoxX; pfam07681 688245011385 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 688245011386 active site 688245011387 homotetramer interface [polypeptide binding]; other site 688245011388 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; cl19223 688245011389 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl19126 688245011390 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 688245011391 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 688245011392 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 688245011393 glyoxylate carboligase; Provisional; Region: PRK11269 688245011394 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 688245011395 PYR/PP interface [polypeptide binding]; other site 688245011396 dimer interface [polypeptide binding]; other site 688245011397 TPP binding site [chemical binding]; other site 688245011398 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 688245011399 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 688245011400 TPP-binding site [chemical binding]; other site 688245011401 transcriptional regulator; Provisional; Region: PRK10632 688245011402 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245011403 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 688245011404 putative effector binding pocket; other site 688245011405 dimerization interface [polypeptide binding]; other site 688245011406 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 688245011407 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 688245011408 MOFRL family; Region: MOFRL; pfam05161 688245011409 Transcriptional regulators [Transcription]; Region: GntR; COG1802 688245011410 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 688245011411 DNA-binding site [nucleotide binding]; DNA binding site 688245011412 FCD domain; Region: FCD; pfam07729 688245011413 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 688245011414 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 688245011415 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 688245011416 active site 688245011417 catalytic site [active] 688245011418 tetramer interface [polypeptide binding]; other site 688245011419 putative bifunctional OHCU decarboxylase/allantoate amidohydrolase; Provisional; Region: PRK13590 688245011420 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 688245011421 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 688245011422 active site 688245011423 metal binding site [ion binding]; metal-binding site 688245011424 dimer interface [polypeptide binding]; other site 688245011425 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 688245011426 M20 Zn-peptidases include exopeptidases; Region: M20_like; cd02697 688245011427 putative metal binding site [ion binding]; other site 688245011428 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245011429 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245011430 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 688245011431 dimerization interface [polypeptide binding]; other site 688245011432 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 688245011433 putative substrate translocation pore; other site 688245011434 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245011435 Sulfate transporter family; Region: Sulfate_transp; cl19250 688245011436 xanthine permease; Region: pbuX; TIGR03173 688245011437 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 688245011438 Malic enzyme, N-terminal domain; Region: malic; pfam00390 688245011439 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 688245011440 putative NAD(P) binding site [chemical binding]; other site 688245011441 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 688245011442 bacteriophage N4 receptor, outer membrane subunit; Provisional; Region: PRK09782 688245011443 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 688245011444 Sel1-like repeats; Region: SEL1; smart00671 688245011445 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 688245011446 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 688245011447 non-specific DNA binding site [nucleotide binding]; other site 688245011448 salt bridge; other site 688245011449 sequence-specific DNA binding site [nucleotide binding]; other site 688245011450 Integrase core domain; Region: rve_3; cl15866 688245011451 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 688245011452 Predicted membrane protein [Function unknown]; Region: COG4325 688245011453 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 688245011454 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 688245011455 Walker A motif; other site 688245011456 ATP binding site [chemical binding]; other site 688245011457 Walker B motif; other site 688245011458 arginine finger; other site 688245011459 Predicted membrane protein [Function unknown]; Region: COG2259 688245011460 EamA-like transporter family; Region: EamA; pfam00892 688245011461 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 688245011462 EamA-like transporter family; Region: EamA; pfam00892 688245011463 Pirin-related protein [General function prediction only]; Region: COG1741 688245011464 Pirin; Region: Pirin; pfam02678 688245011465 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 688245011466 LysR family transcriptional regulator; Provisional; Region: PRK14997 688245011467 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245011468 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 688245011469 putative effector binding pocket; other site 688245011470 putative dimerization interface [polypeptide binding]; other site 688245011471 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 688245011472 Outer membrane efflux protein; Region: OEP; pfam02321 688245011473 Outer membrane efflux protein; Region: OEP; pfam02321 688245011474 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 688245011475 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 688245011476 Walker A/P-loop; other site 688245011477 ATP binding site [chemical binding]; other site 688245011478 Q-loop/lid; other site 688245011479 ABC transporter signature motif; other site 688245011480 Walker B; other site 688245011481 D-loop; other site 688245011482 H-loop/switch region; other site 688245011483 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 688245011484 FtsX-like permease family; Region: FtsX; pfam02687 688245011485 macrolide transporter subunit MacA; Provisional; Region: PRK11578 688245011486 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 688245011487 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245011488 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 688245011489 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 688245011490 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 688245011491 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 688245011492 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 688245011493 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 688245011494 N-terminal plug; other site 688245011495 ligand-binding site [chemical binding]; other site 688245011496 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245011497 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 688245011498 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 688245011499 putative ligand binding site [chemical binding]; other site 688245011500 NAD binding site [chemical binding]; other site 688245011501 dimerization interface [polypeptide binding]; other site 688245011502 catalytic site [active] 688245011503 aldolase II superfamily protein; Provisional; Region: PRK07044 688245011504 intersubunit interface [polypeptide binding]; other site 688245011505 active site 688245011506 Zn2+ binding site [ion binding]; other site 688245011507 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 688245011508 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 688245011509 acyl-activating enzyme (AAE) consensus motif; other site 688245011510 putative AMP binding site [chemical binding]; other site 688245011511 putative active site [active] 688245011512 putative CoA binding site [chemical binding]; other site 688245011513 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245011514 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 688245011515 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 688245011516 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 688245011517 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 688245011518 Ligand binding site [chemical binding]; other site 688245011519 Electron transfer flavoprotein domain; Region: ETF; pfam01012 688245011520 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 688245011521 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 688245011522 FMN binding site [chemical binding]; other site 688245011523 substrate binding site [chemical binding]; other site 688245011524 putative catalytic residue [active] 688245011525 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245011526 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245011527 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 688245011528 enoyl-CoA hydratase; Provisional; Region: PRK07511 688245011529 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 688245011530 substrate binding site [chemical binding]; other site 688245011531 oxyanion hole (OAH) forming residues; other site 688245011532 trimer interface [polypeptide binding]; other site 688245011533 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 688245011534 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; cl09932 688245011535 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 688245011536 active site 688245011537 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 688245011538 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245011539 active site 688245011540 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 688245011541 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 688245011542 dimer interface [polypeptide binding]; other site 688245011543 active site 688245011544 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 688245011545 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 688245011546 substrate binding site [chemical binding]; other site 688245011547 oxyanion hole (OAH) forming residues; other site 688245011548 trimer interface [polypeptide binding]; other site 688245011549 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 688245011550 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 688245011551 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 688245011552 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245011553 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245011554 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 688245011555 putative effector binding pocket; other site 688245011556 dimerization interface [polypeptide binding]; other site 688245011557 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 688245011558 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 688245011559 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 688245011560 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 688245011561 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 688245011562 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 688245011563 dimer interface [polypeptide binding]; other site 688245011564 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 688245011565 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 688245011566 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 688245011567 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 688245011568 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 688245011569 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 688245011570 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 688245011571 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 688245011572 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 688245011573 Cytochrome c; Region: Cytochrom_C; pfam00034 688245011574 Cytochrome c; Region: Cytochrom_C; pfam00034 688245011575 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 688245011576 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 688245011577 XdhC Rossmann domain; Region: XdhC_C; pfam13478 688245011578 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 688245011579 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245011580 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 688245011581 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245011582 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 688245011583 active site 688245011584 substrate binding site [chemical binding]; other site 688245011585 Mg2+ binding site [ion binding]; other site 688245011586 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 688245011587 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245011588 DNA-binding site [nucleotide binding]; DNA binding site 688245011589 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 688245011590 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245011591 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 688245011592 NAD(P) binding site [chemical binding]; other site 688245011593 active site 688245011594 fumarylacetoacetase; Region: PLN02856 688245011595 Fumarylacetoacetase N-terminal; Region: FAA_hydrolase_N; pfam09298 688245011596 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 688245011597 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 688245011598 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 688245011599 Sporulation related domain; Region: SPOR; pfam05036 688245011600 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 688245011601 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 688245011602 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 688245011603 FeS/SAM binding site; other site 688245011604 HemN C-terminal domain; Region: HemN_C; pfam06969 688245011605 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 688245011606 active site 688245011607 dimerization interface [polypeptide binding]; other site 688245011608 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 688245011609 active site 688245011610 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 688245011611 Catalytic domain of Protein Kinases; Region: PKc; cd00180 688245011612 active site 688245011613 ATP binding site [chemical binding]; other site 688245011614 substrate binding site [chemical binding]; other site 688245011615 activation loop (A-loop); other site 688245011616 hypothetical protein; Provisional; Region: PRK11820 688245011617 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 688245011618 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 688245011619 Guanylate kinase; Region: Guanylate_kin; pfam00625 688245011620 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 688245011621 catalytic site [active] 688245011622 G-X2-G-X-G-K; other site 688245011623 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 688245011624 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 688245011625 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 688245011626 Zn2+ binding site [ion binding]; other site 688245011627 Mg2+ binding site [ion binding]; other site 688245011628 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 688245011629 synthetase active site [active] 688245011630 NTP binding site [chemical binding]; other site 688245011631 metal binding site [ion binding]; metal-binding site 688245011632 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 688245011633 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 688245011634 lytic murein transglycosylase; Region: MltB_2; TIGR02283 688245011635 Transglycosylase SLT domain; Region: SLT_2; pfam13406 688245011636 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 688245011637 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 688245011638 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 688245011639 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 688245011640 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245011641 DNA-binding site [nucleotide binding]; DNA binding site 688245011642 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 688245011643 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 688245011644 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245011645 homodimer interface [polypeptide binding]; other site 688245011646 catalytic residue [active] 688245011647 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 688245011648 Spore germination protein; Region: Spore_permease; cl17796 688245011649 SnoaL-like domain; Region: SnoaL_2; pfam12680 688245011650 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 688245011651 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 688245011652 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 688245011653 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 688245011654 substrate binding pocket [chemical binding]; other site 688245011655 membrane-bound complex binding site; other site 688245011656 hinge residues; other site 688245011657 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 688245011658 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 688245011659 Walker A/P-loop; other site 688245011660 ATP binding site [chemical binding]; other site 688245011661 Q-loop/lid; other site 688245011662 ABC transporter signature motif; other site 688245011663 Walker B; other site 688245011664 D-loop; other site 688245011665 H-loop/switch region; other site 688245011666 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 688245011667 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 688245011668 dimer interface [polypeptide binding]; other site 688245011669 conserved gate region; other site 688245011670 putative PBP binding loops; other site 688245011671 ABC-ATPase subunit interface; other site 688245011672 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 688245011673 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; cl00057 688245011674 metal ion-dependent adhesion site (MIDAS); other site 688245011675 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 688245011676 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 688245011677 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; cl18944 688245011678 Transcriptional regulator [Transcription]; Region: IclR; COG1414 688245011679 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 688245011680 Bacterial transcriptional regulator; Region: IclR; pfam01614 688245011681 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 688245011682 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 688245011683 PYR/PP interface [polypeptide binding]; other site 688245011684 dimer interface [polypeptide binding]; other site 688245011685 TPP binding site [chemical binding]; other site 688245011686 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 688245011687 Thiamine pyrophosphate (TPP) family, Xsc-like subfamily, TPP-binding module; composed of proteins similar to Alcaligenes defragrans sulfoacetaldehyde acetyltransferase (Xsc). Xsc plays a key role in the degradation of taurine, catalyzing the...; Region: TPP_Xsc_like; cd02013 688245011688 TPP-binding site; other site 688245011689 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 688245011690 IS2 transposase TnpB; Reviewed; Region: PRK09409 688245011691 HTH-like domain; Region: HTH_21; pfam13276 688245011692 Integrase core domain; Region: rve; pfam00665 688245011693 Integrase core domain; Region: rve_3; pfam13683 688245011694 Transposase; Region: HTH_Tnp_1; cl17663 688245011695 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 688245011696 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_1; cd10446 688245011697 GIY-YIG motif/motif A; other site 688245011698 putative active site [active] 688245011699 putative metal binding site [ion binding]; other site 688245011700 Protein of unknown function (DUF3296); Region: DUF3296; pfam11726 688245011701 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 688245011702 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 688245011703 catalytic residues [active] 688245011704 catalytic nucleophile [active] 688245011705 Presynaptic Site I dimer interface [polypeptide binding]; other site 688245011706 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 688245011707 Synaptic Flat tetramer interface [polypeptide binding]; other site 688245011708 Synaptic Site I dimer interface [polypeptide binding]; other site 688245011709 DNA binding site [nucleotide binding] 688245011710 Helix-turn-helix domain of Hin and related proteins; Region: HTH_Hin_like; cd00569 688245011711 DNA-binding interface [nucleotide binding]; DNA binding site 688245011712 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 688245011713 active site 688245011714 Int/Topo IB signature motif; other site 688245011715 DNA binding site [nucleotide binding] 688245011716 seryl-tRNA synthetase; Provisional; Region: PRK05431 688245011717 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 688245011718 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 688245011719 dimer interface [polypeptide binding]; other site 688245011720 active site 688245011721 motif 1; other site 688245011722 motif 2; other site 688245011723 motif 3; other site 688245011724 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Region: lytB_ispH; cd13944 688245011725 Fe-S cluster binding site [ion binding]; other site 688245011726 substrate binding site [chemical binding]; other site 688245011727 catalytic site [active] 688245011728 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 688245011729 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 688245011730 hypothetical protein; Reviewed; Region: PRK00024 688245011731 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 688245011732 MPN+ (JAMM) motif; other site 688245011733 Zinc-binding site [ion binding]; other site 688245011734 Smr domain; Region: Smr; pfam01713 688245011735 Peptidase family M48; Region: Peptidase_M48; cl12018 688245011736 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 688245011737 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 688245011738 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 688245011739 active site 688245011740 metal binding site [ion binding]; metal-binding site 688245011741 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 688245011742 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 688245011743 apolar tunnel; other site 688245011744 heme binding site [chemical binding]; other site 688245011745 dimerization interface [polypeptide binding]; other site 688245011746 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 688245011747 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245011748 putative substrate translocation pore; other site 688245011749 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245011750 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245011751 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_7; cd08476 688245011752 putative effector binding pocket; other site 688245011753 putative dimerization interface [polypeptide binding]; other site 688245011754 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 688245011755 FtsX-like permease family; Region: FtsX; pfam02687 688245011756 FtsX-like permease family; Region: FtsX; pfam02687 688245011757 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 688245011758 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 688245011759 active site 688245011760 Low molecular weight phosphatase family; Region: LMWPc; cd00115 688245011761 active site 688245011762 Uncharacterized protein family (UPF0167); Region: UPF0167; cl01252 688245011763 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 688245011764 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 688245011765 dimer interface [polypeptide binding]; other site 688245011766 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 688245011767 active site 688245011768 Fe binding site [ion binding]; other site 688245011769 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 688245011770 homotrimer interaction site [polypeptide binding]; other site 688245011771 putative active site [active] 688245011772 aromatic amino acid transporter; Provisional; Region: PRK10238 688245011773 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 688245011774 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 688245011775 FAD dependent oxidoreductase; Region: DAO; pfam01266 688245011776 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 688245011777 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 688245011778 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 688245011779 EamA-like transporter family; Region: EamA; pfam00892 688245011780 EamA-like transporter family; Region: EamA; pfam00892 688245011781 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 688245011782 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 688245011783 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 688245011784 catalytic loop [active] 688245011785 iron binding site [ion binding]; other site 688245011786 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 688245011787 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 688245011788 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 688245011789 [4Fe-4S] binding site [ion binding]; other site 688245011790 molybdopterin cofactor binding site; other site 688245011791 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 688245011792 molybdopterin cofactor binding site; other site 688245011793 Thioredoxin-like [2Fe-2S] ferredoxin; Region: 2Fe-2S_thioredx; pfam01257 688245011794 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 688245011795 putative dimer interface [polypeptide binding]; other site 688245011796 [2Fe-2S] cluster binding site [ion binding]; other site 688245011797 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 688245011798 putative dimer interface [polypeptide binding]; other site 688245011799 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 688245011800 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 688245011801 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 688245011802 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245011803 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245011804 LysR substrate binding domain; Region: LysR_substrate; pfam03466 688245011805 dimerization interface [polypeptide binding]; other site 688245011806 antiporter inner membrane protein; Provisional; Region: PRK11670 688245011807 Domain of unknown function DUF59; Region: DUF59; pfam01883 688245011808 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 688245011809 Walker A motif; other site 688245011810 Restriction endonuclease; Region: Mrr_cat; pfam04471 688245011811 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 688245011812 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 688245011813 active site 688245011814 nucleophile elbow; other site 688245011815 Cache domain; Region: Cache_1; pfam02743 688245011816 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 688245011817 dimerization interface [polypeptide binding]; other site 688245011818 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245011819 metal binding site [ion binding]; metal-binding site 688245011820 active site 688245011821 I-site; other site 688245011822 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 688245011823 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 688245011824 active site 688245011825 HIGH motif; other site 688245011826 KMSKS motif; other site 688245011827 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 688245011828 tRNA binding surface [nucleotide binding]; other site 688245011829 anticodon binding site; other site 688245011830 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 688245011831 dimer interface [polypeptide binding]; other site 688245011832 putative tRNA-binding site [nucleotide binding]; other site 688245011833 Cytochrome c; Region: Cytochrom_C; cl11414 688245011834 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 688245011835 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 688245011836 Sulphur transport; Region: Sulf_transp; pfam04143 688245011837 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 688245011838 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 688245011839 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 688245011840 Uncharacterized conserved protein [Function unknown]; Region: COG1284 688245011841 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 688245011842 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 688245011843 Domain of unknown function (DUF4309); Region: DUF4309; pfam14172 688245011844 SmpA / OmlA family; Region: SmpA_OmlA; cl19285 688245011845 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 688245011846 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 688245011847 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 688245011848 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 688245011849 FeS/SAM binding site; other site 688245011850 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 688245011851 active site 688245011852 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 688245011853 trimer interface [polypeptide binding]; other site 688245011854 eyelet of channel; other site 688245011855 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 688245011856 tetramerization interface [polypeptide binding]; other site 688245011857 active site 688245011858 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 688245011859 putative substrate binding pocket [chemical binding]; other site 688245011860 trimer interface [polypeptide binding]; other site 688245011861 DTW domain; Region: DTW; cl01221 688245011862 Predicted membrane protein [Function unknown]; Region: COG4682 688245011863 yiaA/B two helix domain; Region: YiaAB; pfam05360 688245011864 yiaA/B two helix domain; Region: YiaAB; pfam05360 688245011865 Domain of unknown function (DUF4274); Region: DUF4274; pfam14096 688245011866 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 688245011867 substrate-cofactor binding pocket; other site 688245011868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245011869 homodimer interface [polypeptide binding]; other site 688245011870 catalytic residue [active] 688245011871 aminodeoxychorismate synthase; Provisional; Region: PRK07508 688245011872 chorismate binding enzyme; Region: Chorismate_bind; cl10555 688245011873 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 688245011874 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 688245011875 ligand binding site [chemical binding]; other site 688245011876 flexible hinge region; other site 688245011877 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 688245011878 oligomerization interface [polypeptide binding]; other site 688245011879 active site 688245011880 metal binding site [ion binding]; metal-binding site 688245011881 Pantoate-beta-alanine ligase; Region: PanC; cd00560 688245011882 active site 688245011883 ATP-binding site [chemical binding]; other site 688245011884 pantoate-binding site; other site 688245011885 HXXH motif; other site 688245011886 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 688245011887 putative active site [active] 688245011888 putative catalytic site [active] 688245011889 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 688245011890 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 688245011891 Sulfate transporter family; Region: Sulfate_transp; pfam00916 688245011892 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 688245011893 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 688245011894 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245011895 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 688245011896 dimerization interface [polypeptide binding]; other site 688245011897 diaminopimelate decarboxylase; Provisional; Region: PRK11165 688245011898 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 688245011899 active site 688245011900 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 688245011901 substrate binding site [chemical binding]; other site 688245011902 catalytic residues [active] 688245011903 dimer interface [polypeptide binding]; other site 688245011904 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 688245011905 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 688245011906 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 688245011907 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 688245011908 preprotein translocase subunit SecB; Validated; Region: PRK05751 688245011909 SecA binding site; other site 688245011910 Preprotein binding site; other site 688245011911 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 688245011912 GSH binding site [chemical binding]; other site 688245011913 catalytic residues [active] 688245011914 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 688245011915 active site residue [active] 688245011916 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 688245011917 catalytic core [active] 688245011918 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 688245011919 C-terminal peptidase (prc); Region: prc; TIGR00225 688245011920 Catalytic dyad [active] 688245011921 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 688245011922 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 688245011923 ATP binding site [chemical binding]; other site 688245011924 substrate interface [chemical binding]; other site 688245011925 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 688245011926 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 688245011927 active site 688245011928 phosphorylation site [posttranslational modification] 688245011929 intermolecular recognition site; other site 688245011930 dimerization interface [polypeptide binding]; other site 688245011931 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 688245011932 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 688245011933 active site 688245011934 phosphorylation site [posttranslational modification] 688245011935 intermolecular recognition site; other site 688245011936 dimerization interface [polypeptide binding]; other site 688245011937 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 688245011938 DNA binding residues [nucleotide binding] 688245011939 dimerization interface [polypeptide binding]; other site 688245011940 CHASE3 domain; Region: CHASE3; pfam05227 688245011941 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 688245011942 Histidine kinase; Region: HisKA_3; pfam07730 688245011943 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 688245011944 ATP binding site [chemical binding]; other site 688245011945 Mg2+ binding site [ion binding]; other site 688245011946 G-X-G motif; other site 688245011947 BON domain; Region: BON; pfam04972 688245011948 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 688245011949 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 688245011950 active site 688245011951 (T/H)XGH motif; other site 688245011952 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 688245011953 S-adenosylmethionine binding site [chemical binding]; other site 688245011954 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 688245011955 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 688245011956 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 688245011957 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 688245011958 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 688245011959 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 688245011960 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 688245011961 SRP54-type protein, GTPase domain; Region: SRP54; smart00962 688245011962 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 688245011963 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 688245011964 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 688245011965 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 688245011966 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 688245011967 NAD(P) binding site [chemical binding]; other site 688245011968 catalytic residues [active] 688245011969 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 688245011970 inhibitor site; inhibition site 688245011971 active site 688245011972 dimer interface [polypeptide binding]; other site 688245011973 catalytic residue [active] 688245011974 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 688245011975 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. 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...; Region: MR_like_2; cd03327 688245011976 putative active site pocket [active] 688245011977 putative metal binding site [ion binding]; other site 688245011978 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 688245011979 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245011980 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 688245011981 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245011982 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 688245011983 dimerization interface [polypeptide binding]; other site 688245011984 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245011985 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245011986 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 688245011987 dimerization interface [polypeptide binding]; other site 688245011988 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 688245011989 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 688245011990 putative substrate translocation pore; other site 688245011991 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 688245011992 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 688245011993 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 688245011994 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 688245011995 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 688245011996 DNA-binding site [nucleotide binding]; DNA binding site 688245011997 FCD domain; Region: FCD; pfam07729 688245011998 dihydroxy-acid dehydratase; Validated; Region: PRK06131 688245011999 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245012000 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245012001 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245012002 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 688245012003 putative dimerization interface [polypeptide binding]; other site 688245012004 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 688245012005 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 688245012006 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 688245012007 DNA binding residues [nucleotide binding] 688245012008 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245012009 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 688245012010 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 688245012011 Fatty acid desaturase; Region: FA_desaturase; pfam00487 688245012012 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 688245012013 "initiating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type III and polyketide synthases, type III, which include chalcone synthase and related enzymes. They are...; Region: init_cond_enzymes; cd00827 688245012014 dimer interface [polypeptide binding]; other site 688245012015 active site 688245012016 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl17299 688245012017 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 688245012018 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 688245012019 Domain of unknown function (DUF4284); Region: DUF4284; pfam14112 688245012020 PAS domain S-box; Region: sensory_box; TIGR00229 688245012021 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 688245012022 putative active site [active] 688245012023 heme pocket [chemical binding]; other site 688245012024 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245012025 metal binding site [ion binding]; metal-binding site 688245012026 active site 688245012027 I-site; other site 688245012028 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 688245012029 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 688245012030 Cu(I) binding site [ion binding]; other site 688245012031 Protoheme IX farnesyltransferase; Region: PT_UbiA_Cox10; cd13957 688245012032 putative active site [active] 688245012033 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 688245012034 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 688245012035 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 688245012036 Subunit III/VIIa interface [polypeptide binding]; other site 688245012037 Phospholipid binding site [chemical binding]; other site 688245012038 Subunit I/III interface [polypeptide binding]; other site 688245012039 Subunit III/VIb interface [polypeptide binding]; other site 688245012040 Subunit III/VIa interface; other site 688245012041 Subunit III/Vb interface [polypeptide binding]; other site 688245012042 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 688245012043 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 688245012044 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 688245012045 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 688245012046 Subunit I/III interface [polypeptide binding]; other site 688245012047 D-pathway; other site 688245012048 Subunit I/VIIc interface [polypeptide binding]; other site 688245012049 Subunit I/IV interface [polypeptide binding]; other site 688245012050 Subunit I/II interface [polypeptide binding]; other site 688245012051 Low-spin heme (heme a) binding site [chemical binding]; other site 688245012052 Subunit I/VIIa interface [polypeptide binding]; other site 688245012053 Subunit I/VIa interface [polypeptide binding]; other site 688245012054 Dimer interface; other site 688245012055 Putative water exit pathway; other site 688245012056 Binuclear center (heme a3/CuB) [ion binding]; other site 688245012057 K-pathway; other site 688245012058 Subunit I/Vb interface [polypeptide binding]; other site 688245012059 Putative proton exit pathway; other site 688245012060 Subunit I/VIb interface; other site 688245012061 Subunit I/VIc interface [polypeptide binding]; other site 688245012062 Electron transfer pathway; other site 688245012063 Subunit I/VIIIb interface [polypeptide binding]; other site 688245012064 Subunit I/VIIb interface [polypeptide binding]; other site 688245012065 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 688245012066 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 688245012067 Cupredoxin superfamily; Region: Cupredoxin; cl19115 688245012068 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 688245012069 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 688245012070 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 688245012071 ligand binding site [chemical binding]; other site 688245012072 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 688245012073 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 688245012074 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 688245012075 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 688245012076 active site 688245012077 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 688245012078 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 688245012079 putative active site [active] 688245012080 putative catalytic site [active] 688245012081 LysE type translocator; Region: LysE; cl00565 688245012082 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 688245012083 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 688245012084 TrkA-N domain; Region: TrkA_N; pfam02254 688245012085 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 688245012086 Cytochrome c553 [Energy production and conversion]; Region: COG2863 688245012087 Cytochrome c; Region: Cytochrom_C; cl11414 688245012088 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 688245012089 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 688245012090 Walker A motif; other site 688245012091 ATP binding site [chemical binding]; other site 688245012092 Walker B motif; other site 688245012093 arginine finger; other site 688245012094 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 688245012095 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 688245012096 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 688245012097 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 688245012098 Surface antigen; Region: Bac_surface_Ag; pfam01103 688245012099 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 688245012100 Family of unknown function (DUF490); Region: DUF490; pfam04357 688245012101 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 688245012102 putative homodimer interface [polypeptide binding]; other site 688245012103 putative homotetramer interface [polypeptide binding]; other site 688245012104 putative metal binding site [ion binding]; other site 688245012105 putative homodimer-homodimer interface [polypeptide binding]; other site 688245012106 putative allosteric switch controlling residues; other site 688245012107 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 688245012108 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 688245012109 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 688245012110 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 688245012111 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 688245012112 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 688245012113 Chromate transporter; Region: Chromate_transp; pfam02417 688245012114 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245012115 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 688245012116 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245012117 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 688245012118 putative dimerization interface [polypeptide binding]; other site 688245012119 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 688245012120 PAS domain; Region: PAS_9; pfam13426 688245012121 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 688245012122 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 688245012123 putative active site [active] 688245012124 heme pocket [chemical binding]; other site 688245012125 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245012126 metal binding site [ion binding]; metal-binding site 688245012127 active site 688245012128 I-site; other site 688245012129 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 688245012130 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245012131 metal binding site [ion binding]; metal-binding site 688245012132 active site 688245012133 I-site; other site 688245012134 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 688245012135 HAMP domain; Region: HAMP; pfam00672 688245012136 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 688245012137 dimer interface [polypeptide binding]; other site 688245012138 phosphorylation site [posttranslational modification] 688245012139 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 688245012140 ATP binding site [chemical binding]; other site 688245012141 Mg2+ binding site [ion binding]; other site 688245012142 G-X-G motif; other site 688245012143 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 688245012144 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 688245012145 active site 688245012146 phosphorylation site [posttranslational modification] 688245012147 intermolecular recognition site; other site 688245012148 dimerization interface [polypeptide binding]; other site 688245012149 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 688245012150 DNA binding site [nucleotide binding] 688245012151 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14247 688245012152 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245012153 Walker A/P-loop; other site 688245012154 ATP binding site [chemical binding]; other site 688245012155 Q-loop/lid; other site 688245012156 ABC transporter signature motif; other site 688245012157 Walker B; other site 688245012158 D-loop; other site 688245012159 H-loop/switch region; other site 688245012160 Dual specificity phosphatases (DSP); Ser/Thr and Tyr protein phosphatases. Structurally similar to tyrosine-specific phosphatases but with a shallower active site cleft and a distinctive active site signature motif, HCxxGxxR. Characterized as VHR- or...; Region: DSPc; cl00053 688245012161 Predicted protein-tyrosine phosphatase [Signal transduction mechanisms]; Region: CDC14; COG2453 688245012162 active site 688245012163 catalytic residues [active] 688245012164 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 688245012165 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 688245012166 PDZ domain of trypsin-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 688245012167 protein binding site [polypeptide binding]; other site 688245012168 PDZ domain of trypsin-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 688245012169 protein binding site [polypeptide binding]; other site 688245012170 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 688245012171 catalytic residues [active] 688245012172 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245012173 Sulfate transporter family; Region: Sulfate_transp; cl19250 688245012174 xanthine permease; Region: pbuX; TIGR03173 688245012175 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 688245012176 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 688245012177 active site 688245012178 putative substrate binding pocket [chemical binding]; other site 688245012179 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245012180 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245012181 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 688245012182 dimerization interface [polypeptide binding]; other site 688245012183 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 688245012184 putative acyl-acceptor binding pocket; other site 688245012185 dihydroorotase; Provisional; Region: PRK07627 688245012186 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 688245012187 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 688245012188 active site 688245012189 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 688245012190 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 688245012191 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 688245012192 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 688245012193 active site 688245012194 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 688245012195 hypothetical protein; Validated; Region: PRK00228 688245012196 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 688245012197 DNA photolyase; Region: DNA_photolyase; pfam00875 688245012198 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 688245012199 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 688245012200 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 688245012201 putative binding surface; other site 688245012202 active site 688245012203 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 688245012204 putative binding surface; other site 688245012205 active site 688245012206 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 688245012207 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 688245012208 putative binding surface; other site 688245012209 active site 688245012210 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 688245012211 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 688245012212 ATP binding site [chemical binding]; other site 688245012213 Mg2+ binding site [ion binding]; other site 688245012214 G-X-G motif; other site 688245012215 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 688245012216 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 688245012217 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 688245012218 active site 688245012219 phosphorylation site [posttranslational modification] 688245012220 intermolecular recognition site; other site 688245012221 dimerization interface [polypeptide binding]; other site 688245012222 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 688245012223 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 688245012224 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 688245012225 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 688245012226 dimer interface [polypeptide binding]; other site 688245012227 putative CheW interface [polypeptide binding]; other site 688245012228 CheW-like domain; Region: CheW; pfam01584 688245012229 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 688245012230 active site 688245012231 phosphorylation site [posttranslational modification] 688245012232 intermolecular recognition site; other site 688245012233 dimerization interface [polypeptide binding]; other site 688245012234 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 688245012235 active site 688245012236 phosphorylation site [posttranslational modification] 688245012237 intermolecular recognition site; other site 688245012238 dimerization interface [polypeptide binding]; other site 688245012239 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 688245012240 Rubredoxin [Energy production and conversion]; Region: COG1773 688245012241 iron binding site [ion binding]; other site 688245012242 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 688245012243 substrate binding site [chemical binding]; other site 688245012244 ATP binding site [chemical binding]; other site 688245012245 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 688245012246 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 688245012247 inhibitor-cofactor binding pocket; inhibition site 688245012248 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245012249 catalytic residue [active] 688245012250 PhoD-like phosphatase; Region: PhoD; pfam09423 688245012251 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 688245012252 putative active site [active] 688245012253 putative metal binding site [ion binding]; other site 688245012254 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 688245012255 amino acid transporter; Region: 2A0306; TIGR00909 688245012256 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 688245012257 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 688245012258 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 688245012259 active site 688245012260 Cytochrome c; Region: Cytochrom_C; cl11414 688245012261 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 688245012262 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 688245012263 purine monophosphate binding site [chemical binding]; other site 688245012264 dimer interface [polypeptide binding]; other site 688245012265 putative catalytic residues [active] 688245012266 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 688245012267 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 688245012268 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 688245012269 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 688245012270 FMN binding site [chemical binding]; other site 688245012271 active site 688245012272 catalytic residues [active] 688245012273 substrate binding site [chemical binding]; other site 688245012274 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 688245012275 Predicted membrane protein [Function unknown]; Region: COG1238 688245012276 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 688245012277 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 688245012278 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 688245012279 active site 688245012280 phosphorylation site [posttranslational modification] 688245012281 intermolecular recognition site; other site 688245012282 dimerization interface [polypeptide binding]; other site 688245012283 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 688245012284 DNA binding residues [nucleotide binding] 688245012285 dimerization interface [polypeptide binding]; other site 688245012286 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 688245012287 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 688245012288 dimer interface [polypeptide binding]; other site 688245012289 phosphorylation site [posttranslational modification] 688245012290 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 688245012291 ATP binding site [chemical binding]; other site 688245012292 Mg2+ binding site [ion binding]; other site 688245012293 G-X-G motif; other site 688245012294 Outer membrane efflux protein; Region: OEP; pfam02321 688245012295 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 688245012296 Outer membrane efflux protein; Region: OEP; pfam02321 688245012297 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 688245012298 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 688245012299 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 688245012300 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245012301 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245012302 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 688245012303 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 688245012304 dimerization interface [polypeptide binding]; other site 688245012305 active site 688245012306 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 688245012307 PAS domain; Region: PAS_9; pfam13426 688245012308 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 688245012309 putative active site [active] 688245012310 heme pocket [chemical binding]; other site 688245012311 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 688245012312 PAS domain; Region: PAS_9; pfam13426 688245012313 putative active site [active] 688245012314 heme pocket [chemical binding]; other site 688245012315 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245012316 metal binding site [ion binding]; metal-binding site 688245012317 active site 688245012318 I-site; other site 688245012319 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 688245012320 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 688245012321 dinuclear metal binding motif [ion binding]; other site 688245012322 RNA polymerase sigma factor; Provisional; Region: PRK12514 688245012323 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 688245012324 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 688245012325 DNA binding residues [nucleotide binding] 688245012326 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 688245012327 Anti-sigma-K factor rskA; Region: RskA; pfam10099 688245012328 pentapeptide MXKDX repeat protein; Region: penta_MxKDx; TIGR02953 688245012329 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 688245012330 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 688245012331 Moco binding site; other site 688245012332 metal coordination site [ion binding]; other site 688245012333 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 688245012334 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 688245012335 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 688245012336 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 688245012337 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 688245012338 putative heme binding pocket [chemical binding]; other site 688245012339 HD domain; Region: HD_3; pfam13023 688245012340 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 688245012341 putative FMN binding site [chemical binding]; other site 688245012342 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 688245012343 Cupin domain; Region: Cupin_2; cl17218 688245012344 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 688245012345 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 688245012346 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 688245012347 Ligand Binding Site [chemical binding]; other site 688245012348 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245012349 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 688245012350 dimerization interface [polypeptide binding]; other site 688245012351 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245012352 metal binding site [ion binding]; metal-binding site 688245012353 active site 688245012354 I-site; other site 688245012355 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 688245012356 GTP-binding protein YchF; Reviewed; Region: PRK09601 688245012357 YchF GTPase; Region: YchF; cd01900 688245012358 G1 box; other site 688245012359 GTP/Mg2+ binding site [chemical binding]; other site 688245012360 Switch I region; other site 688245012361 G2 box; other site 688245012362 Switch II region; other site 688245012363 G3 box; other site 688245012364 G4 box; other site 688245012365 G5 box; other site 688245012366 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 688245012367 IS2 transposase TnpB; Reviewed; Region: PRK09409 688245012368 HTH-like domain; Region: HTH_21; pfam13276 688245012369 Integrase core domain; Region: rve; pfam00665 688245012370 Integrase core domain; Region: rve_3; pfam13683 688245012371 Transposase; Region: HTH_Tnp_1; cl17663 688245012372 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 688245012373 Plasmid conjugative transfer entry exclusion protein TraS; Region: TraS; pfam10624 688245012374 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 688245012375 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 688245012376 Restriction endonuclease; Region: Mrr_cat; pfam04471 688245012377 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; cl00057 688245012378 metal ion-dependent adhesion site (MIDAS); other site 688245012379 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 688245012380 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 688245012381 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 688245012382 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 688245012383 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 688245012384 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 688245012385 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 688245012386 ATP binding site [chemical binding]; other site 688245012387 putative Mg++ binding site [ion binding]; other site 688245012388 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 688245012389 substrate binding site [chemical binding]; other site 688245012390 nucleotide binding site [chemical binding]; other site 688245012391 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 688245012392 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 688245012393 nucleotide binding region [chemical binding]; other site 688245012394 ATP-binding site [chemical binding]; other site 688245012395 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 688245012396 WYL domain; Region: WYL; pfam13280 688245012397 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 688245012398 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 688245012399 MOSC domain; Region: MOSC; pfam03473 688245012400 Squalene epoxidase; Region: SE; cl17314 688245012401 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 688245012402 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 688245012403 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 688245012404 dimerization domain [polypeptide binding]; other site 688245012405 dimer interface [polypeptide binding]; other site 688245012406 catalytic residues [active] 688245012407 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 688245012408 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 688245012409 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 688245012410 protein binding site [polypeptide binding]; other site 688245012411 enoyl-CoA hydratase; Provisional; Region: PRK05862 688245012412 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 688245012413 substrate binding site [chemical binding]; other site 688245012414 oxyanion hole (OAH) forming residues; other site 688245012415 trimer interface [polypeptide binding]; other site 688245012416 benzoate transport; Region: 2A0115; TIGR00895 688245012417 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 688245012418 putative substrate translocation pore; other site 688245012419 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245012420 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245012421 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 688245012422 substrate binding pocket [chemical binding]; other site 688245012423 dimerization interface [polypeptide binding]; other site 688245012424 benzoylformate decarboxylase; Reviewed; Region: PRK07092 688245012425 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 688245012426 PYR/PP interface [polypeptide binding]; other site 688245012427 dimer interface [polypeptide binding]; other site 688245012428 TPP binding site [chemical binding]; other site 688245012429 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 688245012430 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 688245012431 TPP-binding site [chemical binding]; other site 688245012432 dimer interface [polypeptide binding]; other site 688245012433 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 688245012434 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 688245012435 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 688245012436 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245012437 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245012438 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245012439 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 688245012440 TOBE domain; Region: TOBE; cl01440 688245012441 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 688245012442 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 688245012443 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 688245012444 dimer interface [polypeptide binding]; other site 688245012445 conserved gate region; other site 688245012446 putative PBP binding loops; other site 688245012447 ABC-ATPase subunit interface; other site 688245012448 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 688245012449 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245012450 Walker A/P-loop; other site 688245012451 ATP binding site [chemical binding]; other site 688245012452 Q-loop/lid; other site 688245012453 ABC transporter signature motif; other site 688245012454 Walker B; other site 688245012455 D-loop; other site 688245012456 H-loop/switch region; other site 688245012457 TOBE domain; Region: TOBE; pfam03459 688245012458 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 688245012459 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 688245012460 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 688245012461 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 688245012462 FeS/SAM binding site; other site 688245012463 TRAM domain; Region: TRAM; pfam01938 688245012464 PcfJ-like protein; Region: PcfJ; pfam14284 688245012465 Protein of unknown function (DUF1266); Region: DUF1266; pfam06889 688245012466 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 688245012467 NlpC/P60 family; Region: NLPC_P60; pfam00877 688245012468 signal recognition particle protein; Provisional; Region: PRK10867 688245012469 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 688245012470 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 688245012471 P loop; other site 688245012472 GTP binding site [chemical binding]; other site 688245012473 Signal peptide binding domain; Region: SRP_SPB; pfam02978 688245012474 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 688245012475 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 688245012476 PAS domain; Region: PAS_8; pfam13188 688245012477 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 688245012478 dimer interface [polypeptide binding]; other site 688245012479 phosphorylation site [posttranslational modification] 688245012480 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 688245012481 ATP binding site [chemical binding]; other site 688245012482 Mg2+ binding site [ion binding]; other site 688245012483 G-X-G motif; other site 688245012484 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 688245012485 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 688245012486 active site 688245012487 phosphorylation site [posttranslational modification] 688245012488 intermolecular recognition site; other site 688245012489 dimerization interface [polypeptide binding]; other site 688245012490 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 688245012491 Walker A motif; other site 688245012492 ATP binding site [chemical binding]; other site 688245012493 Walker B motif; other site 688245012494 arginine finger; other site 688245012495 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 688245012496 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 688245012497 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 688245012498 amidase catalytic site [active] 688245012499 Zn binding residues [ion binding]; other site 688245012500 substrate binding site [chemical binding]; other site 688245012501 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 688245012502 ATP cone domain; Region: ATP-cone; pfam03477 688245012503 Class I ribonucleotide reductase; Region: RNR_I; cd01679 688245012504 active site 688245012505 dimer interface [polypeptide binding]; other site 688245012506 catalytic residues [active] 688245012507 effector binding site; other site 688245012508 R2 peptide binding site; other site 688245012509 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 688245012510 dimer interface [polypeptide binding]; other site 688245012511 putative radical transfer pathway; other site 688245012512 diiron center [ion binding]; other site 688245012513 tyrosyl radical; other site 688245012514 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 688245012515 substrate binding site [chemical binding]; other site 688245012516 ATP binding site [chemical binding]; other site 688245012517 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 688245012518 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 688245012519 DNA packaging tegument protein UL25; Provisional; Region: PHA03248 688245012520 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 688245012521 S-adenosylmethionine binding site [chemical binding]; other site 688245012522 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 688245012523 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 688245012524 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 688245012525 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 688245012526 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 688245012527 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 688245012528 carboxyltransferase (CT) interaction site; other site 688245012529 biotinylation site [posttranslational modification]; other site 688245012530 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 688245012531 catalytic residues [active] 688245012532 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 688245012533 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 688245012534 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 688245012535 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 688245012536 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 688245012537 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 688245012538 Putative modulator of DNA gyrase; Region: PmbA_TldD; cl19356 688245012539 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 688245012540 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 688245012541 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 688245012542 Exoribonuclease R [Transcription]; Region: VacB; COG0557 688245012543 RNB domain; Region: RNB; pfam00773 688245012544 TonB C terminal; Region: TonB_2; pfam13103 688245012545 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 688245012546 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 688245012547 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 688245012548 NAD(P) binding pocket [chemical binding]; other site 688245012549 Transglycosylase; Region: Transgly; cl19357 688245012550 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 688245012551 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 688245012552 active site 688245012553 putative DNA-binding cleft [nucleotide binding]; other site 688245012554 dimer interface [polypeptide binding]; other site 688245012555 Domain of unknown function (DUF3315); Region: DUF3315; cl02275 688245012556 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 688245012557 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 688245012558 cell division protein FtsZ; Validated; Region: PRK09330 688245012559 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 688245012560 nucleotide binding site [chemical binding]; other site 688245012561 SulA interaction site; other site 688245012562 cell division protein FtsA; Region: ftsA; TIGR01174 688245012563 Cell division protein FtsA; Region: FtsA; smart00842 688245012564 Cell division protein FtsA; Region: FtsA; pfam14450 688245012565 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 688245012566 Cell division protein FtsQ; Region: FtsQ; pfam03799 688245012567 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 688245012568 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 688245012569 ATP-grasp domain; Region: ATP-grasp_4; cl17255 688245012570 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 688245012571 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 688245012572 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 688245012573 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 688245012574 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 688245012575 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 688245012576 active site 688245012577 homodimer interface [polypeptide binding]; other site 688245012578 cell division protein FtsW; Region: ftsW; TIGR02614 688245012579 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 688245012580 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 688245012581 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 688245012582 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 688245012583 Mg++ binding site [ion binding]; other site 688245012584 putative catalytic motif [active] 688245012585 putative substrate binding site [chemical binding]; other site 688245012586 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 688245012587 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 688245012588 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 688245012589 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 688245012590 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 688245012591 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 688245012592 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 688245012593 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 688245012594 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 688245012595 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 688245012596 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 688245012597 Cell division protein FtsL; Region: FtsL; pfam04999 688245012598 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 688245012599 cell division protein MraZ; Reviewed; Region: PRK00326 688245012600 MraZ protein; Region: MraZ; pfam02381 688245012601 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 688245012602 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 688245012603 Walker A motif; other site 688245012604 ATP binding site [chemical binding]; other site 688245012605 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 688245012606 Walker B motif; other site 688245012607 arginine finger; other site 688245012608 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 688245012609 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 688245012610 active site 688245012611 HslU subunit interaction site [polypeptide binding]; other site 688245012612 STAS domain; Region: STAS_2; pfam13466 688245012613 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 688245012614 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 688245012615 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 688245012616 P-loop, Walker A motif; other site 688245012617 Base recognition motif; other site 688245012618 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 688245012619 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 688245012620 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 688245012621 active site 688245012622 DNA binding site [nucleotide binding] 688245012623 Int/Topo IB signature motif; other site 688245012624 Protein of unknown function, DUF484; Region: DUF484; cl17449 688245012625 Protein of unknown function, DUF484; Region: DUF484; cl17449 688245012626 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 688245012627 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 688245012628 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 688245012629 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245012630 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; cl17220 688245012631 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245012632 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 688245012633 active site 688245012634 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 688245012635 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 688245012636 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245012637 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 688245012638 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245012639 NAD(P) binding site [chemical binding]; other site 688245012640 active site 688245012641 feruloyl-CoA synthase; Reviewed; Region: PRK08180 688245012642 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 688245012643 acyl-activating enzyme (AAE) consensus motif; other site 688245012644 putative AMP binding site [chemical binding]; other site 688245012645 putative active site [active] 688245012646 putative CoA binding site [chemical binding]; other site 688245012647 enoyl-CoA hydratase; Provisional; Region: PRK08150 688245012648 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 688245012649 substrate binding site [chemical binding]; other site 688245012650 oxyanion hole (OAH) forming residues; other site 688245012651 trimer interface [polypeptide binding]; other site 688245012652 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 688245012653 nudix motif; other site 688245012654 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 688245012655 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 688245012656 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 688245012657 RNA binding surface [nucleotide binding]; other site 688245012658 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 688245012659 active site 688245012660 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 688245012661 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 688245012662 FAD binding pocket [chemical binding]; other site 688245012663 FAD binding motif [chemical binding]; other site 688245012664 phosphate binding motif [ion binding]; other site 688245012665 NAD binding pocket [chemical binding]; other site 688245012666 lysophospholipid transporter LplT; Provisional; Region: PRK11195; cl19150 688245012667 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245012668 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 688245012669 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 688245012670 N-terminal plug; other site 688245012671 ligand-binding site [chemical binding]; other site 688245012672 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 688245012673 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; cl00047 688245012674 ligand binding site [chemical binding]; other site 688245012675 flexible hinge region; other site 688245012676 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 688245012677 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 688245012678 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 688245012679 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 688245012680 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 688245012681 EamA-like transporter family; Region: EamA; pfam00892 688245012682 EamA-like transporter family; Region: EamA; pfam00892 688245012683 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 688245012684 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 688245012685 putative substrate translocation pore; other site 688245012686 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 688245012687 amidase; Provisional; Region: PRK07056 688245012688 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245012689 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245012690 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 688245012691 dimerization interface [polypeptide binding]; other site 688245012692 cysteine synthase; Region: PLN02565 688245012693 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 688245012694 dimer interface [polypeptide binding]; other site 688245012695 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245012696 catalytic residue [active] 688245012697 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 688245012698 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 688245012699 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245012700 Walker A/P-loop; other site 688245012701 ATP binding site [chemical binding]; other site 688245012702 Q-loop/lid; other site 688245012703 ABC transporter signature motif; other site 688245012704 Walker B; other site 688245012705 D-loop; other site 688245012706 H-loop/switch region; other site 688245012707 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 688245012708 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 688245012709 lipoyl-biotinyl attachment site [posttranslational modification]; other site 688245012710 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245012711 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 688245012712 MMPL family; Region: MMPL; cl14618 688245012713 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 688245012714 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; cl17315 688245012715 DNA binding residues [nucleotide binding] 688245012716 dimerization interface [polypeptide binding]; other site 688245012717 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245012718 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245012719 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 688245012720 putative effector binding pocket; other site 688245012721 dimerization interface [polypeptide binding]; other site 688245012722 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 688245012723 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 688245012724 NADP binding site [chemical binding]; other site 688245012725 dimer interface [polypeptide binding]; other site 688245012726 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 688245012727 exonuclease subunit SbcD; Provisional; Region: PRK10966 688245012728 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 688245012729 active site 688245012730 metal binding site [ion binding]; metal-binding site 688245012731 DNA binding site [nucleotide binding] 688245012732 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 688245012733 exonuclease subunit SbcC; Provisional; Region: PRK10246 688245012734 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245012735 Walker A/P-loop; other site 688245012736 ATP binding site [chemical binding]; other site 688245012737 Q-loop/lid; other site 688245012738 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245012739 ABC transporter signature motif; other site 688245012740 Walker B; other site 688245012741 D-loop; other site 688245012742 H-loop/switch region; other site 688245012743 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 688245012744 active site 688245012745 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 688245012746 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 688245012747 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 688245012748 DctM-like transporters; Region: DctM; pfam06808 688245012749 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 688245012750 enoyl-CoA hydratase; Provisional; Region: PRK07511 688245012751 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 688245012752 substrate binding site [chemical binding]; other site 688245012753 oxyanion hole (OAH) forming residues; other site 688245012754 trimer interface [polypeptide binding]; other site 688245012755 heat shock protein HtpX; Provisional; Region: PRK05457 688245012756 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 688245012757 Uncharacterized conserved protein [Function unknown]; Region: COG1432 688245012758 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 688245012759 putative metal binding site [ion binding]; other site 688245012760 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 688245012761 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 688245012762 active site 688245012763 substrate binding pocket [chemical binding]; other site 688245012764 dimer interface [polypeptide binding]; other site 688245012765 ornithine cyclodeaminase; Validated; Region: PRK07589 688245012766 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 688245012767 Arginase family; Region: Arginase; cd09989 688245012768 active site 688245012769 Mn binding site [ion binding]; other site 688245012770 oligomer interface [polypeptide binding]; other site 688245012771 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 688245012772 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 688245012773 Walker A/P-loop; other site 688245012774 ATP binding site [chemical binding]; other site 688245012775 Q-loop/lid; other site 688245012776 ABC transporter signature motif; other site 688245012777 Walker B; other site 688245012778 D-loop; other site 688245012779 H-loop/switch region; other site 688245012780 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 688245012781 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 688245012782 dimer interface [polypeptide binding]; other site 688245012783 conserved gate region; other site 688245012784 putative PBP binding loops; other site 688245012785 ABC-ATPase subunit interface; other site 688245012786 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: HisM; COG0765 688245012787 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 688245012788 dimer interface [polypeptide binding]; other site 688245012789 conserved gate region; other site 688245012790 putative PBP binding loops; other site 688245012791 ABC-ATPase subunit interface; other site 688245012792 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 688245012793 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 688245012794 substrate binding pocket [chemical binding]; other site 688245012795 membrane-bound complex binding site; other site 688245012796 hinge residues; other site 688245012797 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245012798 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245012799 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 688245012800 dimerization interface [polypeptide binding]; other site 688245012801 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 688245012802 DctM-like transporters; Region: DctM; pfam06808 688245012803 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 688245012804 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 688245012805 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 688245012806 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 688245012807 putative ligand binding site [chemical binding]; other site 688245012808 NAD binding site [chemical binding]; other site 688245012809 catalytic site [active] 688245012810 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 688245012811 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 688245012812 FMN-binding pocket [chemical binding]; other site 688245012813 flavin binding motif; other site 688245012814 phosphate binding motif [ion binding]; other site 688245012815 beta-alpha-beta structure motif; other site 688245012816 NAD binding pocket [chemical binding]; other site 688245012817 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 688245012818 catalytic loop [active] 688245012819 iron binding site [ion binding]; other site 688245012820 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 688245012821 Rieske non-heme iron oxygenase (RO) family, Vanillate-O-demethylase oxygenase (VanA) and dicamba O-demethylase oxygenase (DdmC) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating...; Region: Rieske_RO_Alpha_VanA_DdmC; cd03532 688245012822 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 688245012823 alpha subunit interface [polypeptide binding]; other site 688245012824 active site 688245012825 substrate binding site [chemical binding]; other site 688245012826 Fe binding site [ion binding]; other site 688245012827 benzoate transport; Region: 2A0115; TIGR00895 688245012828 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 688245012829 putative substrate translocation pore; other site 688245012830 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; cl17220 688245012831 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245012832 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 688245012833 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 688245012834 iron-sulfur cluster [ion binding]; other site 688245012835 [2Fe-2S] cluster binding site [ion binding]; other site 688245012836 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 688245012837 alpha subunit interface [polypeptide binding]; other site 688245012838 active site 688245012839 substrate binding site [chemical binding]; other site 688245012840 Fe binding site [ion binding]; other site 688245012841 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 688245012842 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 688245012843 DNA-binding site [nucleotide binding]; DNA binding site 688245012844 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 688245012845 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 688245012846 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 688245012847 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 688245012848 Walker A/P-loop; other site 688245012849 ATP binding site [chemical binding]; other site 688245012850 Q-loop/lid; other site 688245012851 ABC transporter signature motif; other site 688245012852 Walker B; other site 688245012853 D-loop; other site 688245012854 H-loop/switch region; other site 688245012855 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 688245012856 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 688245012857 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 688245012858 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 688245012859 CoenzymeA binding site [chemical binding]; other site 688245012860 subunit interaction site [polypeptide binding]; other site 688245012861 PHB binding site; other site 688245012862 enoyl-CoA hydratase; Provisional; Region: PRK06688 688245012863 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 688245012864 substrate binding site [chemical binding]; other site 688245012865 oxyanion hole (OAH) forming residues; other site 688245012866 trimer interface [polypeptide binding]; other site 688245012867 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 688245012868 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 688245012869 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245012870 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 688245012871 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 688245012872 dimer interface [polypeptide binding]; other site 688245012873 active site 688245012874 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 688245012875 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 688245012876 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 688245012877 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 688245012878 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 688245012879 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 688245012880 substrate binding site [chemical binding]; other site 688245012881 oxyanion hole (OAH) forming residues; other site 688245012882 trimer interface [polypeptide binding]; other site 688245012883 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 688245012884 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 688245012885 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 688245012886 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245012887 active site 688245012888 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 688245012889 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 688245012890 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 688245012891 division inhibitor protein; Provisional; Region: slmA; PRK09480 688245012892 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 688245012893 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 688245012894 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 688245012895 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 688245012896 dimerization interface [polypeptide binding]; other site 688245012897 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 688245012898 dimer interface [polypeptide binding]; other site 688245012899 phosphorylation site [posttranslational modification] 688245012900 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 688245012901 ATP binding site [chemical binding]; other site 688245012902 Mg2+ binding site [ion binding]; other site 688245012903 G-X-G motif; other site 688245012904 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 688245012905 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 688245012906 active site 688245012907 phosphorylation site [posttranslational modification] 688245012908 intermolecular recognition site; other site 688245012909 dimerization interface [polypeptide binding]; other site 688245012910 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 688245012911 DNA binding site [nucleotide binding] 688245012912 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 688245012913 feedback inhibition sensing region; other site 688245012914 homohexameric interface [polypeptide binding]; other site 688245012915 nucleotide binding site [chemical binding]; other site 688245012916 N-acetyl-L-glutamate binding site [chemical binding]; other site 688245012917 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 688245012918 Mg++ binding site [ion binding]; other site 688245012919 putative catalytic motif [active] 688245012920 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 688245012921 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 688245012922 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 688245012923 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 688245012924 putative ADP-binding pocket [chemical binding]; other site 688245012925 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 688245012926 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 688245012927 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 688245012928 active site 688245012929 homodimer interface [polypeptide binding]; other site 688245012930 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 688245012931 Glycyl-tRNA synthetase beta subunit; Region: tRNA_synt_2f; pfam02092 688245012932 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 688245012933 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 688245012934 dimer interface [polypeptide binding]; other site 688245012935 motif 1; other site 688245012936 active site 688245012937 motif 2; other site 688245012938 motif 3; other site 688245012939 Uncharacterized family; SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily; Region: SPFH_like_u1; cd03408 688245012940 Helix-turn-helix domain; Region: HTH_17; cl17695 688245012941 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 688245012942 dimer interface [polypeptide binding]; other site 688245012943 ligand binding site [chemical binding]; other site 688245012944 TFIIB zinc-binding; Region: TF_Zn_Ribbon; pfam08271 688245012945 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 688245012946 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245012947 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 688245012948 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 688245012949 dimer interface [polypeptide binding]; other site 688245012950 conserved gate region; other site 688245012951 putative PBP binding loops; other site 688245012952 ABC-ATPase subunit interface; other site 688245012953 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 688245012954 dimer interface [polypeptide binding]; other site 688245012955 conserved gate region; other site 688245012956 putative PBP binding loops; other site 688245012957 ABC-ATPase subunit interface; other site 688245012958 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 688245012959 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 688245012960 Walker A/P-loop; other site 688245012961 ATP binding site [chemical binding]; other site 688245012962 Q-loop/lid; other site 688245012963 ABC transporter signature motif; other site 688245012964 Walker B; other site 688245012965 D-loop; other site 688245012966 H-loop/switch region; other site 688245012967 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 688245012968 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 688245012969 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245012970 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 688245012971 dimerization interface [polypeptide binding]; other site 688245012972 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 688245012973 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 688245012974 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 688245012975 substrate binding site; other site 688245012976 tetramer interface; other site 688245012977 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245012978 active site 688245012979 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245012980 NAD(P) binding site [chemical binding]; other site 688245012981 active site 688245012982 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 688245012983 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 688245012984 NAD binding site [chemical binding]; other site 688245012985 substrate binding site [chemical binding]; other site 688245012986 homodimer interface [polypeptide binding]; other site 688245012987 active site 688245012988 pantothenate kinase; Reviewed; Region: PRK13329 688245012989 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 688245012990 BON domain; Region: BON; pfam04972 688245012991 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 688245012992 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 688245012993 UDP-glucose 4-epimerase; Region: PLN02240 688245012994 NAD binding site [chemical binding]; other site 688245012995 homodimer interface [polypeptide binding]; other site 688245012996 active site 688245012997 substrate binding site [chemical binding]; other site 688245012998 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 688245012999 active site residue [active] 688245013000 Protein of unknown function DUF45; Region: DUF45; pfam01863 688245013001 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 688245013002 putative acyl-acceptor binding pocket; other site 688245013003 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 688245013004 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 688245013005 active site 688245013006 motif I; other site 688245013007 motif II; other site 688245013008 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 688245013009 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 688245013010 dimer interface [polypeptide binding]; other site 688245013011 active site 688245013012 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 688245013013 dimer interface [polypeptide binding]; other site 688245013014 active site 1 [active] 688245013015 active site 2 [active] 688245013016 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 688245013017 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 688245013018 putative active site [active] 688245013019 catalytic triad [active] 688245013020 putative dimer interface [polypeptide binding]; other site 688245013021 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 688245013022 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 688245013023 Transporter associated domain; Region: CorC_HlyC; smart01091 688245013024 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 688245013025 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245013026 Coenzyme A binding pocket [chemical binding]; other site 688245013027 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 688245013028 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 688245013029 dimerization interface [polypeptide binding]; other site 688245013030 putative DNA binding site [nucleotide binding]; other site 688245013031 putative Zn2+ binding site [ion binding]; other site 688245013032 AsnC family; Region: AsnC_trans_reg; pfam01037 688245013033 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 688245013034 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 688245013035 dimer interface [polypeptide binding]; other site 688245013036 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 688245013037 active site 688245013038 Fe binding site [ion binding]; other site 688245013039 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245013040 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 688245013041 cofactor binding site; other site 688245013042 metal binding site [ion binding]; metal-binding site 688245013043 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 688245013044 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 688245013045 Mechanosensitive ion channel; Region: MS_channel; pfam00924 688245013046 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 688245013047 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 688245013048 acyl-activating enzyme (AAE) consensus motif; other site 688245013049 putative AMP binding site [chemical binding]; other site 688245013050 putative active site [active] 688245013051 putative CoA binding site [chemical binding]; other site 688245013052 Hemerythrin; Region: Hemerythrin; cd12107 688245013053 Fe binding site [ion binding]; other site 688245013054 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 688245013055 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 688245013056 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 688245013057 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 688245013058 FAD binding pocket [chemical binding]; other site 688245013059 FAD binding motif [chemical binding]; other site 688245013060 phosphate binding motif [ion binding]; other site 688245013061 NAD binding pocket [chemical binding]; other site 688245013062 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245013063 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 688245013064 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 688245013065 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 688245013066 N-terminal plug; other site 688245013067 ligand-binding site [chemical binding]; other site 688245013068 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 688245013069 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 688245013070 bifunctional enterobactin receptor/adhesin protein; Provisional; Region: PRK13486 688245013071 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 688245013072 N-terminal plug; other site 688245013073 ligand-binding site [chemical binding]; other site 688245013074 lytic murein transglycosylase; Provisional; Region: PRK11619 688245013075 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 688245013076 N-acetyl-D-glucosamine binding site [chemical binding]; other site 688245013077 catalytic residue [active] 688245013078 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 688245013079 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 688245013080 Ligand Binding Site [chemical binding]; other site 688245013081 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 688245013082 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 688245013083 putative C-terminal domain interface [polypeptide binding]; other site 688245013084 putative GSH binding site (G-site) [chemical binding]; other site 688245013085 putative dimer interface [polypeptide binding]; other site 688245013086 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 688245013087 putative N-terminal domain interface [polypeptide binding]; other site 688245013088 putative dimer interface [polypeptide binding]; other site 688245013089 putative substrate binding pocket (H-site) [chemical binding]; other site 688245013090 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 688245013091 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 688245013092 active site 688245013093 NTP binding site [chemical binding]; other site 688245013094 metal binding triad [ion binding]; metal-binding site 688245013095 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 688245013096 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 688245013097 Zn2+ binding site [ion binding]; other site 688245013098 Mg2+ binding site [ion binding]; other site 688245013099 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 688245013100 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 688245013101 NAD binding site [chemical binding]; other site 688245013102 substrate binding site [chemical binding]; other site 688245013103 catalytic Zn binding site [ion binding]; other site 688245013104 tetramer interface [polypeptide binding]; other site 688245013105 structural Zn binding site [ion binding]; other site 688245013106 thioredoxin 2; Provisional; Region: PRK10996 688245013107 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 688245013108 catalytic residues [active] 688245013109 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 688245013110 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245013111 Uncharacterized conserved protein [Function unknown]; Region: COG1565 688245013112 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 688245013113 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 688245013114 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245013115 NAD(P) binding site [chemical binding]; other site 688245013116 active site 688245013117 Dihydroneopterin aldolase; Region: FolB; smart00905 688245013118 active site 688245013119 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 688245013120 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 688245013121 Ligand Binding Site [chemical binding]; other site 688245013122 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 688245013123 hypothetical protein; Provisional; Region: PRK11667 688245013124 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 688245013125 catalytic core [active] 688245013126 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 688245013127 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 688245013128 dimer interface [polypeptide binding]; other site 688245013129 active site 688245013130 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 688245013131 substrate binding site [chemical binding]; other site 688245013132 catalytic residue [active] 688245013133 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 688245013134 active site 688245013135 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 688245013136 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 688245013137 metal binding site [ion binding]; metal-binding site 688245013138 putative dimer interface [polypeptide binding]; other site 688245013139 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245013140 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 688245013141 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 688245013142 YhhN-like protein; Region: YhhN; pfam07947 688245013143 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 688245013144 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 688245013145 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 688245013146 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 688245013147 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 688245013148 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 688245013149 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 688245013150 MgtC family; Region: MgtC; pfam02308 688245013151 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 688245013152 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 688245013153 Walker A motif; other site 688245013154 ATP binding site [chemical binding]; other site 688245013155 Walker B motif; other site 688245013156 arginine finger; other site 688245013157 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 688245013158 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 688245013159 catalytic triad [active] 688245013160 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 688245013161 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 688245013162 RuvA N terminal domain; Region: RuvA_N; pfam01330 688245013163 Helix-hairpin-helix domain; Region: HHH_5; pfam14520 688245013164 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 688245013165 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 688245013166 PhoH-like protein; Region: PhoH; pfam02562 688245013167 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 688245013168 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 688245013169 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 688245013170 dimer interface [polypeptide binding]; other site 688245013171 phosphorylation site [posttranslational modification] 688245013172 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 688245013173 ATP binding site [chemical binding]; other site 688245013174 Mg2+ binding site [ion binding]; other site 688245013175 G-X-G motif; other site 688245013176 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 688245013177 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 688245013178 active site 688245013179 phosphorylation site [posttranslational modification] 688245013180 intermolecular recognition site; other site 688245013181 dimerization interface [polypeptide binding]; other site 688245013182 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 688245013183 DNA binding residues [nucleotide binding] 688245013184 dimerization interface [polypeptide binding]; other site 688245013185 Domain of unknown function (DUF336); Region: DUF336; pfam03928 688245013186 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 688245013187 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245013188 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 688245013189 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 688245013190 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 688245013191 ATP binding site [chemical binding]; other site 688245013192 Mg++ binding site [ion binding]; other site 688245013193 motif III; other site 688245013194 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 688245013195 nucleotide binding region [chemical binding]; other site 688245013196 ATP-binding site [chemical binding]; other site 688245013197 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 688245013198 putative RNA binding site [nucleotide binding]; other site 688245013199 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 688245013200 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 688245013201 metal binding site [ion binding]; metal-binding site 688245013202 putative dimer interface [polypeptide binding]; other site 688245013203 hypothetical protein; Provisional; Region: PRK06156 688245013204 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 688245013205 active site 688245013206 metal binding site [ion binding]; metal-binding site 688245013207 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 688245013208 putative active site [active] 688245013209 dimerization interface [polypeptide binding]; other site 688245013210 putative tRNAtyr binding site [nucleotide binding]; other site 688245013211 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 688245013212 PAS fold; Region: PAS_4; pfam08448 688245013213 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 688245013214 PAS domain; Region: PAS_9; pfam13426 688245013215 putative active site [active] 688245013216 heme pocket [chemical binding]; other site 688245013217 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245013218 metal binding site [ion binding]; metal-binding site 688245013219 active site 688245013220 I-site; other site 688245013221 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 688245013222 AMP nucleosidase; Provisional; Region: PRK08292 688245013223 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 688245013224 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 688245013225 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245013226 metal binding site [ion binding]; metal-binding site 688245013227 active site 688245013228 I-site; other site 688245013229 choline dehydrogenase; Validated; Region: PRK02106 688245013230 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245013231 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 688245013232 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 688245013233 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 688245013234 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 688245013235 enoyl-CoA hydratase; Provisional; Region: PRK06563 688245013236 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 688245013237 substrate binding site [chemical binding]; other site 688245013238 oxyanion hole (OAH) forming residues; other site 688245013239 trimer interface [polypeptide binding]; other site 688245013240 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 688245013241 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245013242 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 688245013243 putative Zn2+ binding site [ion binding]; other site 688245013244 putative DNA binding site [nucleotide binding]; other site 688245013245 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 688245013246 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 688245013247 serine/threonine protein kinase; Provisional; Region: PRK11768 688245013248 Phosphotransferase enzyme family; Region: APH; pfam01636 688245013249 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 688245013250 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 688245013251 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 688245013252 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245013253 putative substrate translocation pore; other site 688245013254 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 688245013255 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 688245013256 DNA binding residues [nucleotide binding] 688245013257 dimer interface [polypeptide binding]; other site 688245013258 [2Fe-2S] cluster binding site [ion binding]; other site 688245013259 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 688245013260 homotrimer interaction site [polypeptide binding]; other site 688245013261 putative active site [active] 688245013262 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 688245013263 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 688245013264 putative substrate translocation pore; other site 688245013265 heat shock protein 90; Provisional; Region: PRK05218 688245013266 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 688245013267 ATP binding site [chemical binding]; other site 688245013268 Mg2+ binding site [ion binding]; other site 688245013269 G-X-G motif; other site 688245013270 Hsp90 protein; Region: HSP90; pfam00183 688245013271 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 688245013272 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 688245013273 RNA binding surface [nucleotide binding]; other site 688245013274 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 688245013275 active site 688245013276 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 688245013277 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 688245013278 ligand binding site [chemical binding]; other site 688245013279 flexible hinge region; other site 688245013280 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 688245013281 putative switch regulator; other site 688245013282 non-specific DNA interactions [nucleotide binding]; other site 688245013283 DNA binding site [nucleotide binding] 688245013284 sequence specific DNA binding site [nucleotide binding]; other site 688245013285 putative cAMP binding site [chemical binding]; other site 688245013286 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 688245013287 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 688245013288 acyl-activating enzyme (AAE) consensus motif; other site 688245013289 putative AMP binding site [chemical binding]; other site 688245013290 putative active site [active] 688245013291 putative CoA binding site [chemical binding]; other site 688245013292 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 688245013293 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 688245013294 Walker A/P-loop; other site 688245013295 ATP binding site [chemical binding]; other site 688245013296 Q-loop/lid; other site 688245013297 ABC transporter signature motif; other site 688245013298 Walker B; other site 688245013299 D-loop; other site 688245013300 H-loop/switch region; other site 688245013301 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 688245013302 TM-ABC transporter signature motif; other site 688245013303 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 688245013304 TM-ABC transporter signature motif; other site 688245013305 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 688245013306 putative ligand binding site [chemical binding]; other site 688245013307 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 688245013308 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 688245013309 Walker A/P-loop; other site 688245013310 ATP binding site [chemical binding]; other site 688245013311 Q-loop/lid; other site 688245013312 ABC transporter signature motif; other site 688245013313 Walker B; other site 688245013314 D-loop; other site 688245013315 H-loop/switch region; other site 688245013316 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 688245013317 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 688245013318 acyl-activating enzyme (AAE) consensus motif; other site 688245013319 AMP binding site [chemical binding]; other site 688245013320 active site 688245013321 CoA binding site [chemical binding]; other site 688245013322 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245013323 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 688245013324 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 688245013325 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 688245013326 S-adenosylmethionine binding site [chemical binding]; other site 688245013327 Predicted aminopeptidase (DUF2265); Region: DUF2265; cl17720 688245013328 putative metal dependent hydrolase; Provisional; Region: PRK11598 688245013329 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 688245013330 Sulfatase; Region: Sulfatase; pfam00884 688245013331 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 688245013332 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 688245013333 dimer interface [polypeptide binding]; other site 688245013334 conserved gate region; other site 688245013335 putative PBP binding loops; other site 688245013336 ABC-ATPase subunit interface; other site 688245013337 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 688245013338 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 688245013339 Walker A/P-loop; other site 688245013340 ATP binding site [chemical binding]; other site 688245013341 Q-loop/lid; other site 688245013342 ABC transporter signature motif; other site 688245013343 Walker B; other site 688245013344 D-loop; other site 688245013345 H-loop/switch region; other site 688245013346 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 688245013347 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 688245013348 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 688245013349 nucleoside/Zn binding site; other site 688245013350 dimer interface [polypeptide binding]; other site 688245013351 catalytic motif [active] 688245013352 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 688245013353 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 688245013354 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 688245013355 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 688245013356 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 688245013357 Acyl CoA binding protein; Region: ACBP; pfam00887 688245013358 acyl-CoA binding pocket [chemical binding]; other site 688245013359 CoA binding site [chemical binding]; other site 688245013360 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 688245013361 trimer interface [polypeptide binding]; other site 688245013362 eyelet of channel; other site 688245013363 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 688245013364 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 688245013365 NADP binding site [chemical binding]; other site 688245013366 dimer interface [polypeptide binding]; other site 688245013367 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245013368 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 688245013369 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 688245013370 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 688245013371 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 688245013372 Helix-turn-helix domain; Region: HTH_18; pfam12833 688245013373 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 688245013374 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 688245013375 metal binding site [ion binding]; metal-binding site 688245013376 putative dimer interface [polypeptide binding]; other site 688245013377 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 688245013378 putative ligand binding site [chemical binding]; other site 688245013379 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 688245013380 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 688245013381 putative [4Fe-4S] binding site [ion binding]; other site 688245013382 putative molybdopterin cofactor binding site [chemical binding]; other site 688245013383 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 688245013384 putative molybdopterin cofactor binding site; other site 688245013385 Cache domain; Region: Cache_1; pfam02743 688245013386 Sensory domain of two-component sensor kinase; Region: Cache_3; pfam14827 688245013387 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245013388 metal binding site [ion binding]; metal-binding site 688245013389 active site 688245013390 I-site; other site 688245013391 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 688245013392 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 688245013393 hydroxyglutarate oxidase; Provisional; Region: PRK11728; cl19156 688245013394 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 688245013395 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 688245013396 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_3; cd06151 688245013397 homotrimer interaction site [polypeptide binding]; other site 688245013398 putative active site [active] 688245013399 Transmembrane secretion effector; Region: MFS_3; pfam05977 688245013400 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 688245013401 putative substrate translocation pore; other site 688245013402 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 688245013403 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 688245013404 catalytic triad [active] 688245013405 conserved cis-peptide bond; other site 688245013406 Pirin-related protein [General function prediction only]; Region: COG1741 688245013407 Pirin; Region: Pirin; pfam02678 688245013408 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 688245013409 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245013410 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 688245013411 dimerization interface [polypeptide binding]; other site 688245013412 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245013413 TraB family; Region: TraB; pfam01963 688245013414 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 688245013415 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 688245013416 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 688245013417 Transcriptional regulator [Transcription]; Region: IclR; COG1414 688245013418 Bacterial transcriptional regulator; Region: IclR; pfam01614 688245013419 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 688245013420 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 688245013421 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 688245013422 Putative ammonia monooxygenase; Region: AmoA; pfam05145 688245013423 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 688245013424 Protein of unknown function, DUF399; Region: DUF399; cl01139 688245013425 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 688245013426 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 688245013427 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 688245013428 putative active site [active] 688245013429 heme pocket [chemical binding]; other site 688245013430 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 688245013431 putative active site [active] 688245013432 heme pocket [chemical binding]; other site 688245013433 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 688245013434 PAS domain; Region: PAS_9; pfam13426 688245013435 putative active site [active] 688245013436 heme pocket [chemical binding]; other site 688245013437 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 688245013438 metal binding site [ion binding]; metal-binding site 688245013439 active site 688245013440 I-site; other site 688245013441 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 688245013442 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 688245013443 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 688245013444 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 688245013445 putative active site [active] 688245013446 putative substrate binding site [chemical binding]; other site 688245013447 putative cosubstrate binding site; other site 688245013448 catalytic site [active] 688245013449 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 688245013450 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245013451 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 688245013452 dimerization interface [polypeptide binding]; other site 688245013453 substrate binding pocket [chemical binding]; other site 688245013454 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 688245013455 UvrD-like helicase C-terminal domain; Region: UvrD_C_2; pfam13538 688245013456 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 688245013457 putative ligand binding site [chemical binding]; other site 688245013458 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 688245013459 FAD binding domain; Region: FAD_binding_4; pfam01565 688245013460 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 688245013461 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; cl19645 688245013462 D-serine dehydratase; Provisional; Region: PRK02991 688245013463 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 688245013464 catalytic residue [active] 688245013465 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 688245013466 Phosphoesterase family; Region: Phosphoesterase; pfam04185 688245013467 Domain of unknown function (DUF756); Region: DUF756; pfam05506 688245013468 Domain of unknown function (DUF756); Region: DUF756; pfam05506 688245013469 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 688245013470 MMPL family; Region: MMPL; cl14618 688245013471 BAF1 / ABF1 chromatin reorganizing factor; Region: BAF1_ABF1; pfam04684 688245013472 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 688245013473 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245013474 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 688245013475 Outer membrane efflux protein; Region: OEP; pfam02321 688245013476 Outer membrane efflux protein; Region: OEP; pfam02321 688245013477 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 688245013478 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 688245013479 active site 688245013480 phosphorylation site [posttranslational modification] 688245013481 intermolecular recognition site; other site 688245013482 dimerization interface [polypeptide binding]; other site 688245013483 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 688245013484 DNA binding site [nucleotide binding] 688245013485 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 688245013486 HAMP domain; Region: HAMP; pfam00672 688245013487 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 688245013488 dimer interface [polypeptide binding]; other site 688245013489 phosphorylation site [posttranslational modification] 688245013490 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 688245013491 ATP binding site [chemical binding]; other site 688245013492 Mg2+ binding site [ion binding]; other site 688245013493 G-X-G motif; other site 688245013494 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 688245013495 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 688245013496 putative ligand binding residues [chemical binding]; other site 688245013497 enterobactin receptor protein; Provisional; Region: PRK13483 688245013498 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 688245013499 N-terminal plug; other site 688245013500 ligand-binding site [chemical binding]; other site 688245013501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399; cl19827 688245013502 Protein of unknown function (DUF445); Region: DUF445; pfam04286 688245013503 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 688245013504 HlyD family secretion protein; Region: HlyD_3; pfam13437 688245013505 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 688245013506 Biotin-lipoyl like; Region: Biotin_lipoyl_2; cl19169 688245013507 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 688245013508 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 688245013509 DXD motif; other site 688245013510 zinc-ribbons; Region: zinc-ribbons_6; pfam07191 688245013511 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 688245013512 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 688245013513 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 688245013514 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 688245013515 heme-binding site [chemical binding]; other site 688245013516 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 688245013517 FAD binding pocket [chemical binding]; other site 688245013518 FAD binding motif [chemical binding]; other site 688245013519 phosphate binding motif [ion binding]; other site 688245013520 beta-alpha-beta structure motif; other site 688245013521 NAD binding pocket [chemical binding]; other site 688245013522 Heme binding pocket [chemical binding]; other site 688245013523 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 688245013524 GAF domain; Region: GAF; pfam01590 688245013525 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 688245013526 Walker A motif; other site 688245013527 ATP binding site [chemical binding]; other site 688245013528 Walker B motif; other site 688245013529 arginine finger; other site 688245013530 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 688245013531 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 688245013532 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 688245013533 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 688245013534 catalytic residue [active] 688245013535 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 688245013536 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 688245013537 ATP-grasp domain; Region: ATP-grasp_4; cl17255 688245013538 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 688245013539 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 688245013540 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 688245013541 carboxyltransferase (CT) interaction site; other site 688245013542 biotinylation site [posttranslational modification]; other site 688245013543 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 688245013544 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 688245013545 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl19172 688245013546 acyl-CoA synthetase; Validated; Region: PRK06178 688245013547 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 688245013548 acyl-activating enzyme (AAE) consensus motif; other site 688245013549 AMP binding site [chemical binding]; other site 688245013550 active site 688245013551 CoA binding site [chemical binding]; other site 688245013552 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 688245013553 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 688245013554 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 688245013555 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 688245013556 putative ligand binding site [chemical binding]; other site 688245013557 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 688245013558 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 688245013559 catalytic residue [active] 688245013560 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 688245013561 Walker A motif; other site 688245013562 ATP binding site [chemical binding]; other site 688245013563 Walker B motif; other site 688245013564 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 688245013565 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 688245013566 Walker A motif; other site 688245013567 ATP binding site [chemical binding]; other site 688245013568 Walker B motif; other site 688245013569 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 688245013570 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 688245013571 NAD-binding of NADP-dependent 3-hydroxyisobutyrate dehydrogenase; Region: NAD_binding_11; pfam14833 688245013572 outer membrane lipoprotein; Provisional; Region: PRK11023 688245013573 BON domain; Region: BON; pfam04972 688245013574 BON domain; Region: BON; pfam04972 688245013575 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 688245013576 dimer interface [polypeptide binding]; other site 688245013577 active site 688245013578 hypothetical protein; Provisional; Region: PRK14673 688245013579 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 688245013580 putative SAM binding site [chemical binding]; other site 688245013581 putative homodimer interface [polypeptide binding]; other site 688245013582 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 688245013583 putative chaperone; Provisional; Region: PRK11678 688245013584 nucleotide binding site [chemical binding]; other site 688245013585 putative NEF/HSP70 interaction site [polypeptide binding]; other site 688245013586 SBD interface [polypeptide binding]; other site 688245013587 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 688245013588 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 688245013589 active site 688245013590 OsmC-like protein; Region: OsmC; pfam02566 688245013591 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 688245013592 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_15; cd08492 688245013593 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 688245013594 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 688245013595 dimer interface [polypeptide binding]; other site 688245013596 conserved gate region; other site 688245013597 putative PBP binding loops; other site 688245013598 ABC-ATPase subunit interface; other site 688245013599 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 688245013600 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 688245013601 dimer interface [polypeptide binding]; other site 688245013602 conserved gate region; other site 688245013603 putative PBP binding loops; other site 688245013604 ABC-ATPase subunit interface; other site 688245013605 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 688245013606 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 688245013607 Walker A/P-loop; other site 688245013608 ATP binding site [chemical binding]; other site 688245013609 Q-loop/lid; other site 688245013610 ABC transporter signature motif; other site 688245013611 Walker B; other site 688245013612 D-loop; other site 688245013613 H-loop/switch region; other site 688245013614 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 688245013615 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 688245013616 Walker A/P-loop; other site 688245013617 ATP binding site [chemical binding]; other site 688245013618 Q-loop/lid; other site 688245013619 ABC transporter signature motif; other site 688245013620 Walker B; other site 688245013621 D-loop; other site 688245013622 H-loop/switch region; other site 688245013623 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 688245013624 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 688245013625 alkylhydroperoxidase domain protein, Avi_7169 family; Region: perox_Avi_7169; TIGR04030 688245013626 Uncharacterized conserved protein [Function unknown]; Region: COG2128 688245013627 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 688245013628 anion transporter; Region: dass; TIGR00785 688245013629 transmembrane helices; other site 688245013630 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 688245013631 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 688245013632 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 688245013633 alphaNTD homodimer interface [polypeptide binding]; other site 688245013634 alphaNTD - beta interaction site [polypeptide binding]; other site 688245013635 alphaNTD - beta' interaction site [polypeptide binding]; other site 688245013636 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 688245013637 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 688245013638 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 688245013639 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 688245013640 RNA binding surface [nucleotide binding]; other site 688245013641 30S ribosomal protein S11; Validated; Region: PRK05309 688245013642 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 688245013643 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 688245013644 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 688245013645 SecY translocase; Region: SecY; pfam00344 688245013646 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 688245013647 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 688245013648 23S rRNA binding site [nucleotide binding]; other site 688245013649 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 688245013650 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 688245013651 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 688245013652 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 688245013653 5S rRNA interface [nucleotide binding]; other site 688245013654 L27 interface [polypeptide binding]; other site 688245013655 23S rRNA interface [nucleotide binding]; other site 688245013656 L5 interface [polypeptide binding]; other site 688245013657 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 688245013658 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 688245013659 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 688245013660 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 688245013661 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 688245013662 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 688245013663 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 688245013664 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 688245013665 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 688245013666 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 688245013667 RNA binding site [nucleotide binding]; other site 688245013668 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 688245013669 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 688245013670 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245013671 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 688245013672 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 688245013673 putative DNA binding site [nucleotide binding]; other site 688245013674 putative Zn2+ binding site [ion binding]; other site 688245013675 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 688245013676 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 688245013677 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245013678 Coenzyme A binding pocket [chemical binding]; other site 688245013679 glycerol kinase; Provisional; Region: glpK; PRK00047 688245013680 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 688245013681 N- and C-terminal domain interface [polypeptide binding]; other site 688245013682 active site 688245013683 MgATP binding site [chemical binding]; other site 688245013684 catalytic site [active] 688245013685 metal binding site [ion binding]; metal-binding site 688245013686 glycerol binding site [chemical binding]; other site 688245013687 homotetramer interface [polypeptide binding]; other site 688245013688 homodimer interface [polypeptide binding]; other site 688245013689 FBP binding site [chemical binding]; other site 688245013690 protein IIAGlc interface [polypeptide binding]; other site 688245013691 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 688245013692 amphipathic channel; other site 688245013693 Asn-Pro-Ala signature motifs; other site 688245013694 SdiA-regulated; Region: SdiA-regulated; cl19046 688245013695 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 688245013696 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 688245013697 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 688245013698 Pyrroline-5-carboxylate reductase dimerization; Region: P5CR_dimer; pfam14748 688245013699 4-Hydroxybenzoate polyprenyltransferase; Region: PT_UbiA_COQ2; cd13959 688245013700 putative active site [active] 688245013701 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 688245013702 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 688245013703 active site 688245013704 Ferritin-like domain; Region: Ferritin; pfam00210 688245013705 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 688245013706 dimerization interface [polypeptide binding]; other site 688245013707 DPS ferroxidase diiron center [ion binding]; other site 688245013708 ion pore; other site 688245013709 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 688245013710 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245013711 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 688245013712 dimerization interface [polypeptide binding]; other site 688245013713 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 688245013714 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 688245013715 generic binding surface II; other site 688245013716 ssDNA binding site; other site 688245013717 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 688245013718 ATP binding site [chemical binding]; other site 688245013719 putative Mg++ binding site [ion binding]; other site 688245013720 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 688245013721 nucleotide binding region [chemical binding]; other site 688245013722 ATP-binding site [chemical binding]; other site 688245013723 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 688245013724 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 688245013725 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 688245013726 Zn2+ binding site [ion binding]; other site 688245013727 Mg2+ binding site [ion binding]; other site 688245013728 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 688245013729 Chain length determinant protein; Region: Wzz; pfam02706 688245013730 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 688245013731 EamA-like transporter family; Region: EamA; pfam00892 688245013732 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 688245013733 ligand binding site [chemical binding]; other site 688245013734 active site 688245013735 UGI interface [polypeptide binding]; other site 688245013736 catalytic site [active] 688245013737 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 688245013738 DNA binding site [nucleotide binding] 688245013739 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 688245013740 active site 688245013741 ribulose/triose binding site [chemical binding]; other site 688245013742 phosphate binding site [ion binding]; other site 688245013743 substrate (anthranilate) binding pocket [chemical binding]; other site 688245013744 product (indole) binding pocket [chemical binding]; other site 688245013745 She9 / Mdm33 family; Region: She9_MDM33; pfam05546 688245013746 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 688245013747 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 688245013748 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 688245013749 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 688245013750 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 688245013751 glutamine binding [chemical binding]; other site 688245013752 catalytic triad [active] 688245013753 Chorismate mutase type II; Region: CM_2; smart00830 688245013754 anthranilate synthase component I; Provisional; Region: PRK13565 688245013755 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 688245013756 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 688245013757 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 688245013758 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; pfam02675 688245013759 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 688245013760 phosphoglycolate phosphatase; Provisional; Region: PRK13222 688245013761 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 688245013762 motif II; other site 688245013763 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 688245013764 substrate binding site [chemical binding]; other site 688245013765 hexamer interface [polypeptide binding]; other site 688245013766 metal binding site [ion binding]; metal-binding site 688245013767 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 688245013768 Site-specific recombinase; Region: SpecificRecomb; pfam10136 688245013769 thiamine monophosphate kinase; Provisional; Region: PRK05731 688245013770 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 688245013771 ATP binding site [chemical binding]; other site 688245013772 dimerization interface [polypeptide binding]; other site 688245013773 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 688245013774 Protein-interacting V-domain of mammalian Alix and related domains; Region: V_Alix_like; cl14654 688245013775 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 688245013776 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 688245013777 tetramer interfaces [polypeptide binding]; other site 688245013778 binuclear metal-binding site [ion binding]; other site 688245013779 Competence-damaged protein; Region: CinA; pfam02464 688245013780 Predicted membrane protein [Function unknown]; Region: COG4655 688245013781 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 688245013782 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 688245013783 TPR repeat; Region: TPR_11; pfam13414 688245013784 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 688245013785 binding surface 688245013786 TPR motif; other site 688245013787 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 688245013788 Type II secretion system (T2SS), protein F; Region: T2SF; cl19503 688245013789 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 688245013790 ATP binding site [chemical binding]; other site 688245013791 Walker A motif; other site 688245013792 hexamer interface [polypeptide binding]; other site 688245013793 Walker B motif; other site 688245013794 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 688245013795 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 688245013796 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 688245013797 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 688245013798 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 688245013799 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 688245013800 TadE-like protein; Region: TadE; pfam07811 688245013801 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 688245013802 non-specific DNA binding site [nucleotide binding]; other site 688245013803 salt bridge; other site 688245013804 sequence-specific DNA binding site [nucleotide binding]; other site 688245013805 hypothetical protein; Provisional; Region: PRK10396 688245013806 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 688245013807 SEC-C motif; Region: SEC-C; pfam02810 688245013808 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 688245013809 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 688245013810 active site 688245013811 FMN binding site [chemical binding]; other site 688245013812 substrate binding site [chemical binding]; other site 688245013813 3Fe-4S cluster binding site [ion binding]; other site 688245013814 RIO kinase family, catalytic domain. The RIO kinase catalytic domain 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), aminoglycoside...; Region: RIO; cl17248 688245013815 ATP binding site [chemical binding]; other site 688245013816 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 688245013817 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 688245013818 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 688245013819 putative active site [active] 688245013820 heme pocket [chemical binding]; other site 688245013821 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 688245013822 dimer interface [polypeptide binding]; other site 688245013823 phosphorylation site [posttranslational modification] 688245013824 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 688245013825 ATP binding site [chemical binding]; other site 688245013826 Mg2+ binding site [ion binding]; other site 688245013827 G-X-G motif; other site 688245013828 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 688245013829 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 688245013830 active site 688245013831 phosphorylation site [posttranslational modification] 688245013832 intermolecular recognition site; other site 688245013833 dimerization interface [polypeptide binding]; other site 688245013834 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 688245013835 Uncharacterized conserved protein [Function unknown]; Region: COG3791 688245013836 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 688245013837 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 688245013838 active site 688245013839 phosphorylation site [posttranslational modification] 688245013840 intermolecular recognition site; other site 688245013841 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 688245013842 DNA binding residues [nucleotide binding] 688245013843 dimerization interface [polypeptide binding]; other site 688245013844 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245013845 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 688245013846 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 688245013847 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl19134 688245013848 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 688245013849 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 688245013850 Transcriptional regulator [Transcription]; Region: IclR; COG1414 688245013851 Bacterial transcriptional regulator; Region: IclR; pfam01614 688245013852 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 688245013853 Transcriptional regulator [Transcription]; Region: IclR; COG1414 688245013854 Bacterial transcriptional regulator; Region: IclR; pfam01614 688245013855 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245013856 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 688245013857 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 688245013858 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 688245013859 FMN-binding pocket [chemical binding]; other site 688245013860 flavin binding motif; other site 688245013861 phosphate binding motif [ion binding]; other site 688245013862 beta-alpha-beta structure motif; other site 688245013863 NAD binding pocket [chemical binding]; other site 688245013864 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 688245013865 catalytic loop [active] 688245013866 iron binding site [ion binding]; other site 688245013867 UreD urease accessory protein; Region: UreD; pfam01774 688245013868 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245013869 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 688245013870 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 688245013871 active site 688245013872 iron coordination sites [ion binding]; other site 688245013873 substrate binding pocket [chemical binding]; other site 688245013874 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 688245013875 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 688245013876 Walker A/P-loop; other site 688245013877 ATP binding site [chemical binding]; other site 688245013878 Q-loop/lid; other site 688245013879 ABC transporter signature motif; other site 688245013880 Walker B; other site 688245013881 D-loop; other site 688245013882 H-loop/switch region; other site 688245013883 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 688245013884 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 688245013885 Walker A/P-loop; other site 688245013886 ATP binding site [chemical binding]; other site 688245013887 Q-loop/lid; other site 688245013888 ABC transporter signature motif; other site 688245013889 Walker B; other site 688245013890 D-loop; other site 688245013891 H-loop/switch region; other site 688245013892 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 688245013893 TM-ABC transporter signature motif; other site 688245013894 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 688245013895 TM-ABC transporter signature motif; other site 688245013896 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 688245013897 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 688245013898 putative ligand binding site [chemical binding]; other site 688245013899 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 688245013900 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 688245013901 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 688245013902 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 688245013903 alpha-gamma subunit interface [polypeptide binding]; other site 688245013904 beta-gamma subunit interface [polypeptide binding]; other site 688245013905 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 688245013906 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 688245013907 gamma-beta subunit interface [polypeptide binding]; other site 688245013908 alpha-beta subunit interface [polypeptide binding]; other site 688245013909 LysE type translocator; Region: LysE; cl00565 688245013910 urease subunit alpha; Reviewed; Region: ureC; PRK13207 688245013911 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 688245013912 subunit interactions [polypeptide binding]; other site 688245013913 active site 688245013914 flap region; other site 688245013915 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 688245013916 putative active site pocket [active] 688245013917 dimerization interface [polypeptide binding]; other site 688245013918 putative catalytic residue [active] 688245013919 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 688245013920 dimer interface [polypeptide binding]; other site 688245013921 catalytic residues [active] 688245013922 UreF; Region: UreF; cl19817 688245013923 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 688245013924 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 688245013925 G1 box; other site 688245013926 GTP/Mg2+ binding site [chemical binding]; other site 688245013927 Switch I region; other site 688245013928 G3 box; other site 688245013929 Switch II region; other site 688245013930 G4 box; other site 688245013931 G5 box; other site 688245013932 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 688245013933 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245013934 Coenzyme A binding pocket [chemical binding]; other site 688245013935 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 688245013936 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 688245013937 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 688245013938 active site 688245013939 metal binding site [ion binding]; metal-binding site 688245013940 PIN domain; Region: PIN_3; pfam13470 688245013941 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 688245013942 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 688245013943 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 688245013944 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 688245013945 dimer interface [polypeptide binding]; other site 688245013946 putative tRNA-binding site [nucleotide binding]; other site 688245013947 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 688245013948 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 688245013949 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 688245013950 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 688245013951 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 688245013952 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 688245013953 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 688245013954 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 688245013955 Walker A/P-loop; other site 688245013956 ATP binding site [chemical binding]; other site 688245013957 Q-loop/lid; other site 688245013958 ABC transporter signature motif; other site 688245013959 Walker B; other site 688245013960 D-loop; other site 688245013961 H-loop/switch region; other site 688245013962 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 688245013963 OstA-like protein; Region: OstA; pfam03968 688245013964 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 688245013965 catalytic residues [active] 688245013966 hinge region; other site 688245013967 alpha helical domain; other site 688245013968 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 688245013969 Sporulation related domain; Region: SPOR; pfam05036 688245013970 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 688245013971 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 688245013972 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 688245013973 active site 688245013974 HIGH motif; other site 688245013975 KMSK motif region; other site 688245013976 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 688245013977 tRNA binding surface [nucleotide binding]; other site 688245013978 anticodon binding site; other site 688245013979 Predicted membrane protein (DUF2214); Region: DUF2214; cl01427 688245013980 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245013981 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245013982 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 688245013983 putative effector binding pocket; other site 688245013984 dimerization interface [polypeptide binding]; other site 688245013985 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 688245013986 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 688245013987 ATP binding site [chemical binding]; other site 688245013988 Mg2+ binding site [ion binding]; other site 688245013989 G-X-G motif; other site 688245013990 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 688245013991 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 688245013992 active site 688245013993 phosphorylation site [posttranslational modification] 688245013994 intermolecular recognition site; other site 688245013995 dimerization interface [polypeptide binding]; other site 688245013996 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; cl17355 688245013997 DNA binding site [nucleotide binding] 688245013998 malate synthase G; Provisional; Region: PRK02999 688245013999 active site 688245014000 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 688245014001 active site 1 [active] 688245014002 dimer interface [polypeptide binding]; other site 688245014003 hexamer interface [polypeptide binding]; other site 688245014004 active site 2 [active] 688245014005 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 688245014006 active site 1 [active] 688245014007 dimer interface [polypeptide binding]; other site 688245014008 hexamer interface [polypeptide binding]; other site 688245014009 active site 2 [active] 688245014010 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 688245014011 putative active site [active] 688245014012 Glutamine amidotransferases class-II; Region: GATase_2; pfam00310 688245014013 putative dimer interface [polypeptide binding]; other site 688245014014 glutathione synthetase; Provisional; Region: PRK05246 688245014015 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 688245014016 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 688245014017 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 688245014018 Sulfate transporter family; Region: Sulfate_transp; cl19250 688245014019 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 688245014020 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 688245014021 Glutamate-cysteine ligase; Region: GshA; pfam08886 688245014022 Cation transport protein; Region: TrkH; cl17365 688245014023 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 688245014024 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 688245014025 TrkA-N domain; Region: TrkA_N; pfam02254 688245014026 TrkA-C domain; Region: TrkA_C; pfam02080 688245014027 TrkA-N domain; Region: TrkA_N; pfam02254 688245014028 TrkA-C domain; Region: TrkA_C; pfam02080 688245014029 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 688245014030 putative catalytic cysteine [active] 688245014031 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 688245014032 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; cl19912 688245014033 Lipopolysaccharide-assembly; Region: LptE; cl01125 688245014034 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 688245014035 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 688245014036 HIGH motif; other site 688245014037 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 688245014038 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 688245014039 active site 688245014040 KMSKS motif; other site 688245014041 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 688245014042 tRNA binding surface [nucleotide binding]; other site 688245014043 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 688245014044 Mechanosensitive ion channel; Region: MS_channel; pfam00924 688245014045 intracellular protease, PfpI family; Region: PfpI; TIGR01382 688245014046 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 688245014047 conserved cys residue [active] 688245014048 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 688245014049 META domain; Region: META; pfam03724 688245014050 Nuclease-related domain; Region: NERD; pfam08378 688245014051 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 688245014052 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 688245014053 Tetratricopeptide repeat; Region: TPR_20; pfam14561 688245014054 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 688245014055 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 688245014056 Walker A/P-loop; other site 688245014057 ATP binding site [chemical binding]; other site 688245014058 Q-loop/lid; other site 688245014059 ABC transporter signature motif; other site 688245014060 Walker B; other site 688245014061 D-loop; other site 688245014062 H-loop/switch region; other site 688245014063 AIR carboxylase; Region: AIRC; cl00310 688245014064 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 688245014065 ATP-grasp domain; Region: ATP-grasp_4; cl17255 688245014066 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 688245014067 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 688245014068 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 688245014069 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; cl19131 688245014070 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 688245014071 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 688245014072 Walker A/P-loop; other site 688245014073 ATP binding site [chemical binding]; other site 688245014074 Q-loop/lid; other site 688245014075 ABC transporter signature motif; other site 688245014076 Walker B; other site 688245014077 D-loop; other site 688245014078 H-loop/switch region; other site 688245014079 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 688245014080 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 688245014081 dimer interface [polypeptide binding]; other site 688245014082 conserved gate region; other site 688245014083 putative PBP binding loops; other site 688245014084 ABC-ATPase subunit interface; other site 688245014085 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245014086 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 688245014087 active site 688245014088 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 688245014089 Triacylglycerol lipase-like subfamily of the SGNH 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 hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 688245014090 active site 688245014091 catalytic triad [active] 688245014092 oxyanion hole [active] 688245014093 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 688245014094 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 688245014095 Glycoprotease family; Region: Peptidase_M22; pfam00814 688245014096 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 688245014097 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245014098 Coenzyme A binding pocket [chemical binding]; other site 688245014099 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 688245014100 active site 688245014101 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 688245014102 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 688245014103 Cl binding site [ion binding]; other site 688245014104 oligomer interface [polypeptide binding]; other site 688245014105 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 688245014106 dimer interface [polypeptide binding]; other site 688245014107 NADP binding site [chemical binding]; other site 688245014108 catalytic residues [active] 688245014109 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 688245014110 Transcriptional regulators [Transcription]; Region: GntR; COG1802 688245014111 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 688245014112 DNA-binding site [nucleotide binding]; DNA binding site 688245014113 FCD domain; Region: FCD; pfam07729 688245014114 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 688245014115 DctM-like transporters; Region: DctM; pfam06808 688245014116 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 688245014117 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 688245014118 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 688245014119 inhibitor site; inhibition site 688245014120 active site 688245014121 dimer interface [polypeptide binding]; other site 688245014122 catalytic residue [active] 688245014123 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 688245014124 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245014125 putative substrate translocation pore; other site 688245014126 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 688245014127 trimer interface [polypeptide binding]; other site 688245014128 eyelet of channel; other site 688245014129 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 688245014130 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 688245014131 FMN-binding pocket [chemical binding]; other site 688245014132 flavin binding motif; other site 688245014133 phosphate binding motif [ion binding]; other site 688245014134 beta-alpha-beta structure motif; other site 688245014135 NAD binding pocket [chemical binding]; other site 688245014136 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 688245014137 catalytic loop [active] 688245014138 iron binding site [ion binding]; other site 688245014139 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 688245014140 homotrimer interaction site [polypeptide binding]; other site 688245014141 putative active site [active] 688245014142 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 688245014143 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 688245014144 [2Fe-2S] cluster binding site [ion binding]; other site 688245014145 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 688245014146 hydrophobic ligand binding site; other site 688245014147 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245014148 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 688245014149 putative active site [active] 688245014150 putative metal binding site [ion binding]; other site 688245014151 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 688245014152 NAD(P) binding site [chemical binding]; other site 688245014153 catalytic residues [active] 688245014154 hypothetical protein; Provisional; Region: PRK07064 688245014155 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 688245014156 PYR/PP interface [polypeptide binding]; other site 688245014157 dimer interface [polypeptide binding]; other site 688245014158 TPP binding site [chemical binding]; other site 688245014159 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 688245014160 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 688245014161 TPP-binding site [chemical binding]; other site 688245014162 short chain dehydrogenase; Provisional; Region: PRK07062 688245014163 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 688245014164 putative NAD(P) binding site [chemical binding]; other site 688245014165 putative active site [active] 688245014166 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 688245014167 Transcriptional regulator [Transcription]; Region: IclR; COG1414 688245014168 Bacterial transcriptional regulator; Region: IclR; pfam01614 688245014169 short chain dehydrogenase; Provisional; Region: PRK12939 688245014170 classical (c) SDRs; Region: SDR_c; cd05233 688245014171 NAD(P) binding site [chemical binding]; other site 688245014172 active site 688245014173 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 688245014174 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245014175 L-aspartate dehydrogenase; Provisional; Region: PRK13303 688245014176 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 688245014177 Domain of unknown function DUF108; Region: DUF108; pfam01958 688245014178 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 688245014179 Transcriptional regulator [Transcription]; Region: IclR; COG1414 688245014180 Bacterial transcriptional regulator; Region: IclR; pfam01614 688245014181 Putative lysophospholipase; Region: Hydrolase_4; cl19140 688245014182 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 688245014183 Cupin domain; Region: Cupin_2; pfam07883 688245014184 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 688245014185 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 688245014186 acyl-activating enzyme (AAE) consensus motif; other site 688245014187 putative AMP binding site [chemical binding]; other site 688245014188 putative active site [active] 688245014189 putative CoA binding site [chemical binding]; other site 688245014190 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 688245014191 intersubunit interface [polypeptide binding]; other site 688245014192 active site 688245014193 zinc binding site [ion binding]; other site 688245014194 Na+ binding site [ion binding]; other site 688245014195 sensor protein QseC; Provisional; Region: PRK10337 688245014196 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 688245014197 dimer interface [polypeptide binding]; other site 688245014198 phosphorylation site [posttranslational modification] 688245014199 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 688245014200 ATP binding site [chemical binding]; other site 688245014201 Mg2+ binding site [ion binding]; other site 688245014202 G-X-G motif; other site 688245014203 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 688245014204 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 688245014205 active site 688245014206 phosphorylation site [posttranslational modification] 688245014207 intermolecular recognition site; other site 688245014208 dimerization interface [polypeptide binding]; other site 688245014209 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 688245014210 DNA binding site [nucleotide binding] 688245014211 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 688245014212 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 688245014213 active site 688245014214 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 688245014215 active site 688245014216 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 688245014217 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 688245014218 active site 688245014219 pyruvate kinase; Provisional; Region: PRK05826 688245014220 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; cd00288 688245014221 domain interfaces; other site 688245014222 active site 688245014223 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 688245014224 proline aminopeptidase P II; Provisional; Region: PRK10879 688245014225 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 688245014226 active site 688245014227 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 688245014228 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 688245014229 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 688245014230 Substrate binding site; other site 688245014231 metal-binding site 688245014232 transketolase; Reviewed; Region: PRK12753 688245014233 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 688245014234 TPP-binding site [chemical binding]; other site 688245014235 dimer interface [polypeptide binding]; other site 688245014236 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 688245014237 PYR/PP interface [polypeptide binding]; other site 688245014238 dimer interface [polypeptide binding]; other site 688245014239 TPP binding site [chemical binding]; other site 688245014240 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 688245014241 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 688245014242 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 688245014243 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 688245014244 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 688245014245 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 688245014246 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 688245014247 Pirin; Region: Pirin; pfam02678 688245014248 Pirin-related protein [General function prediction only]; Region: COG1741 688245014249 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 688245014250 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 688245014251 Aspartase; Region: Aspartase; cd01357 688245014252 active sites [active] 688245014253 tetramer interface [polypeptide binding]; other site 688245014254 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 688245014255 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 688245014256 dihydrodipicolinate reductase; Provisional; Region: PRK00048 688245014257 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 688245014258 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 688245014259 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 688245014260 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 688245014261 metal binding site 2 [ion binding]; metal-binding site 688245014262 putative DNA binding helix; other site 688245014263 metal binding site 1 [ion binding]; metal-binding site 688245014264 dimer interface [polypeptide binding]; other site 688245014265 structural Zn2+ binding site [ion binding]; other site 688245014266 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 688245014267 Protein of unknown function (DUF1501); Region: DUF1501; cl19855 688245014268 HPr kinase/phosphorylase; Provisional; Region: PRK05428 688245014269 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 688245014270 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 688245014271 Hpr binding site; other site 688245014272 active site 688245014273 homohexamer subunit interaction site [polypeptide binding]; other site 688245014274 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 688245014275 active site 688245014276 phosphorylation site [posttranslational modification] 688245014277 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 688245014278 30S subunit binding site; other site 688245014279 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 688245014280 ATP binding site [chemical binding]; other site 688245014281 active site 688245014282 phosphoribosylaminoimidazole-succinocarboxamide synthase; Provisional; Region: PRK13959 688245014283 substrate binding site [chemical binding]; other site 688245014284 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl19519 688245014285 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245014286 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 688245014287 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245014288 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245014289 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 688245014290 putative effector binding pocket; other site 688245014291 dimerization interface [polypeptide binding]; other site 688245014292 Pirin; Region: Pirin; pfam02678 688245014293 Pirin-related protein [General function prediction only]; Region: COG1741 688245014294 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 688245014295 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 688245014296 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 688245014297 C-terminal domain interface [polypeptide binding]; other site 688245014298 GSH binding site (G-site) [chemical binding]; other site 688245014299 dimer interface [polypeptide binding]; other site 688245014300 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 688245014301 dimer interface [polypeptide binding]; other site 688245014302 N-terminal domain interface [polypeptide binding]; other site 688245014303 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245014304 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 688245014305 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245014306 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 688245014307 dimerization interface [polypeptide binding]; other site 688245014308 substrate binding pocket [chemical binding]; other site 688245014309 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 688245014310 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 688245014311 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 688245014312 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 688245014313 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 688245014314 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 688245014315 substrate binding pocket [chemical binding]; other site 688245014316 membrane-bound complex binding site; other site 688245014317 hinge residues; other site 688245014318 Uncharacterized conserved protein [Function unknown]; Region: COG3148 688245014319 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 688245014320 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 688245014321 S-adenosylmethionine binding site [chemical binding]; other site 688245014322 DNA polymerase II large subunit; Provisional; Region: PRK14714 688245014323 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 688245014324 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 688245014325 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 688245014326 PAS fold; Region: PAS_3; pfam08447 688245014327 putative active site [active] 688245014328 heme pocket [chemical binding]; other site 688245014329 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 688245014330 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 688245014331 ATP binding site [chemical binding]; other site 688245014332 Mg2+ binding site [ion binding]; other site 688245014333 G-X-G motif; other site 688245014334 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 688245014335 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 688245014336 putative NAD(P) binding site [chemical binding]; other site 688245014337 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 688245014338 putative Zn2+ binding site [ion binding]; other site 688245014339 putative DNA binding site [nucleotide binding]; other site 688245014340 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 688245014341 catalytic triad [active] 688245014342 dimer interface [polypeptide binding]; other site 688245014343 conserved cis-peptide bond; other site 688245014344 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 688245014345 catalytic triad [active] 688245014346 conserved cis-peptide bond; other site 688245014347 Pirin-related protein [General function prediction only]; Region: COG1741 688245014348 Pirin; Region: Pirin; pfam02678 688245014349 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 688245014350 LysR family transcriptional regulator; Provisional; Region: PRK14997 688245014351 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245014352 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 688245014353 putative effector binding pocket; other site 688245014354 putative dimerization interface [polypeptide binding]; other site 688245014355 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 688245014356 catalytic residues [active] 688245014357 dimer interface [polypeptide binding]; other site 688245014358 Transglycosylase; Region: Transgly; pfam00912 688245014359 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 688245014360 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 688245014361 putative protease; Region: PHA00666 688245014362 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 688245014363 Na binding site [ion binding]; other site 688245014364 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 688245014365 active site 688245014366 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 688245014367 putative RNAase interaction site [polypeptide binding]; other site 688245014368 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 688245014369 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 688245014370 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 688245014371 active site 688245014372 phosphorylation site [posttranslational modification] 688245014373 intermolecular recognition site; other site 688245014374 dimerization interface [polypeptide binding]; other site 688245014375 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 688245014376 DNA binding residues [nucleotide binding] 688245014377 dimerization interface [polypeptide binding]; other site 688245014378 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; cl09440 688245014379 Histidine kinase; Region: HisKA_3; pfam07730 688245014380 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 688245014381 ATP binding site [chemical binding]; other site 688245014382 Mg2+ binding site [ion binding]; other site 688245014383 G-X-G motif; other site 688245014384 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 688245014385 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 688245014386 Ligand Binding Site [chemical binding]; other site 688245014387 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 688245014388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245014389 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 688245014390 putative dimerization interface [polypeptide binding]; other site 688245014391 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 688245014392 GntP family permease; Region: GntP_permease; pfam02447 688245014393 tricarballylate dehydrogenase; Validated; Region: PRK08274 688245014394 precorrin 3B synthase CobZ; Region: CobZ_N-term; TIGR02485 688245014395 tricarballylate utilization protein B; Provisional; Region: PRK15033 688245014396 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 688245014397 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245014398 Uncharacterized conserved protein [Function unknown]; Region: COG2128 688245014399 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 688245014400 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 688245014401 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 688245014402 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 688245014403 DNA binding residues [nucleotide binding] 688245014404 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 688245014405 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245014406 Transcriptional regulator [Transcription]; Region: LysR; COG0583 688245014407 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245014408 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 688245014409 dimerization interface [polypeptide binding]; other site 688245014410 EamA-like transporter family; Region: EamA; pfam00892 688245014411 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 688245014412 EamA-like transporter family; Region: EamA; pfam00892 688245014413 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 688245014414 nudix motif; other site 688245014415 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 688245014416 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 688245014417 Coenzyme A binding pocket [chemical binding]; other site 688245014418 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 688245014419 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 688245014420 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 688245014421 inhibitor-cofactor binding pocket; inhibition site 688245014422 pyridoxal 5'-phosphate binding site [chemical binding]; other site 688245014423 catalytic residue [active] 688245014424 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 688245014425 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 688245014426 SurA N-terminal domain; Region: SurA_N; pfam09312 688245014427 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 688245014428 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 688245014429 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 688245014430 OstA-like protein; Region: OstA; cl00844 688245014431 Organic solvent tolerance protein; Region: OstA_C; pfam04453 688245014432 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 688245014433 Phosphotransferase enzyme family; Region: APH; pfam01636 688245014434 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 688245014435 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 688245014436 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 688245014437 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 688245014438 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 688245014439 hypothetical protein; Provisional; Region: PRK08201 688245014440 metal binding site [ion binding]; metal-binding site 688245014441 putative dimer interface [polypeptide binding]; other site 688245014442 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 688245014443 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 688245014444 dimer interface [polypeptide binding]; other site 688245014445 putative CheW interface [polypeptide binding]; other site 688245014446 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 688245014447 S-adenosylmethionine binding site [chemical binding]; other site 688245014448 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 688245014449 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 688245014450 Predicted membrane protein [Function unknown]; Region: COG2119 688245014451 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 688245014452 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 688245014453 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 688245014454 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 688245014455 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 688245014456 short chain dehydrogenase; Provisional; Region: PRK07024 688245014457 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 688245014458 NAD(P) binding site [chemical binding]; other site 688245014459 active site 688245014460 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 688245014461 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 688245014462 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 688245014463 active site 688245014464 motif I; other site 688245014465 motif II; other site 688245014466 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 688245014467 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 688245014468 putative active site [active] 688245014469 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 688245014470 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 688245014471 active site 688245014472 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 688245014473 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 688245014474 ligand binding site [chemical binding]; other site 688245014475 flexible hinge region; other site 688245014476 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 688245014477 substrate binding site [chemical binding]; other site 688245014478 hinge regions; other site 688245014479 ADP binding site [chemical binding]; other site 688245014480 catalytic site [active] 688245014481 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 688245014482 AzlC protein; Region: AzlC; pfam03591 688245014483 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 688245014484 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 688245014485 putative active site [active] 688245014486 substrate binding site [chemical binding]; other site 688245014487 putative cosubstrate binding site; other site 688245014488 catalytic site [active] 688245014489 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 688245014490 substrate binding site [chemical binding]; other site 688245014491 SmpA / OmlA family; Region: SmpA_OmlA; cl19285 688245014492 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 688245014493 active site 688245014494 catalytic residues [active] 688245014495 metal binding site [ion binding]; metal-binding site 688245014496 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 688245014497 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 688245014498 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 688245014499 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 688245014500 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 688245014501 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 688245014502 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 688245014503 Protein export membrane protein; Region: SecD_SecF; pfam02355 688245014504 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 688245014505 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 688245014506 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 688245014507 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 688245014508 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 688245014509 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 688245014510 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 688245014511 dimer interface [polypeptide binding]; other site 688245014512 PYR/PP interface [polypeptide binding]; other site 688245014513 TPP binding site [chemical binding]; other site 688245014514 substrate binding site [chemical binding]; other site 688245014515 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 688245014516 TPP-binding site [chemical binding]; other site 688245014517 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 688245014518 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 688245014519 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 688245014520 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 688245014521 putative DNA binding site [nucleotide binding]; other site 688245014522 putative Zn2+ binding site [ion binding]; other site 688245014523 AsnC family; Region: AsnC_trans_reg; pfam01037 688245014524 Transmembrane secretion effector; Region: MFS_3; pfam05977 688245014525 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 688245014526 putative substrate translocation pore; other site 688245014527 MltA specific insert domain; Region: MltA; smart00925 688245014528 3D domain; Region: 3D; pfam06725 688245014529 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 688245014530 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 688245014531 ligand binding site [chemical binding]; other site 688245014532 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 688245014533 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 688245014534 active site 688245014535 phosphorylation site [posttranslational modification] 688245014536 intermolecular recognition site; other site 688245014537 dimerization interface [polypeptide binding]; other site 688245014538 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 688245014539 DNA binding residues [nucleotide binding] 688245014540 dimerization interface [polypeptide binding]; other site 688245014541 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 688245014542 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 688245014543 putative active site [active] 688245014544 heme pocket [chemical binding]; other site 688245014545 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 688245014546 dimer interface [polypeptide binding]; other site 688245014547 phosphorylation site [posttranslational modification] 688245014548 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 688245014549 ATP binding site [chemical binding]; other site 688245014550 Mg2+ binding site [ion binding]; other site 688245014551 G-X-G motif; other site 688245014552 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 688245014553 putative active site [active] 688245014554 catalytic triad [active] 688245014555 dimer interface [polypeptide binding]; other site 688245014556 TIGR02099 family protein; Region: TIGR02099 688245014557 Protein of unknown function; Region: DUF3971; pfam13116 688245014558 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 688245014559 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 688245014560 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 688245014561 metal binding triad; other site 688245014562 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 688245014563 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 688245014564 metal binding triad; other site 688245014565 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; cl19627 688245014566 putative glutathione S-transferase; Provisional; Region: PRK10357 688245014567 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 688245014568 putative C-terminal domain interface [polypeptide binding]; other site 688245014569 putative GSH binding site (G-site) [chemical binding]; other site 688245014570 putative dimer interface [polypeptide binding]; other site 688245014571 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 688245014572 dimer interface [polypeptide binding]; other site 688245014573 N-terminal domain interface [polypeptide binding]; other site 688245014574 putative substrate binding pocket (H-site) [chemical binding]; other site 688245014575 adenylosuccinate lyase; Provisional; Region: PRK09285 688245014576 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 688245014577 tetramer interface [polypeptide binding]; other site 688245014578 active site 688245014579 YaeQ protein; Region: YaeQ; pfam07152 688245014580 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 688245014581 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 688245014582 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 688245014583 Predicted membrane protein [Function unknown]; Region: COG1950 688245014584 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 688245014585 Peptidase family M48; Region: Peptidase_M48; cl12018 688245014586 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 688245014587 trimer interface [polypeptide binding]; other site 688245014588 dimer interface [polypeptide binding]; other site 688245014589 putative active site [active] 688245014590 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 688245014591 O-Antigen ligase; Region: Wzy_C; pfam04932 688245014592 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 688245014593 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 688245014594 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 688245014595 Pilin (bacterial filament); Region: Pilin; pfam00114 688245014596 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; cd00060 688245014597 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 688245014598 phosphopeptide binding site; other site 688245014599 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 688245014600 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 688245014601 dimer interface [polypeptide binding]; other site 688245014602 ssDNA binding site [nucleotide binding]; other site 688245014603 tetramer (dimer of dimers) interface [polypeptide binding]; other site 688245014604 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 688245014605 Major Facilitator Superfamily; Region: MFS_1; pfam07690 688245014606 putative substrate translocation pore; other site 688245014607 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 688245014608 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 688245014609 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 688245014610 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 688245014611 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 688245014612 hydroxyglutarate oxidase; Provisional; Region: PRK11728; cl19156 688245014613 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 688245014614 cell density-dependent motility repressor; Provisional; Region: PRK10082 688245014615 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 688245014616 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 688245014617 dimerization interface [polypeptide binding]; other site 688245014618 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 688245014619 active site 688245014620 dimer interface [polypeptide binding]; other site 688245014621 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 688245014622 EamA-like transporter family; Region: EamA; pfam00892 688245014623 EamA-like transporter family; Region: EamA; pfam00892 688245014624 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; cl17426 688245014625 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 688245014626 CoenzymeA binding site [chemical binding]; other site 688245014627 subunit interaction site [polypeptide binding]; other site 688245014628 PHB binding site; other site 688245014629 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 688245014630 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 688245014631 DNA binding residues [nucleotide binding] 688245014632 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 688245014633 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 688245014634 CoA binding domain; Region: CoA_binding; smart00881 688245014635 CoA-ligase; Region: Ligase_CoA; pfam00549 688245014636 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 688245014637 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 688245014638 CoA-ligase; Region: Ligase_CoA; pfam00549 688245014639 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 688245014640 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 688245014641 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 688245014642 D-galactonate transporter; Region: 2A0114; TIGR00893 688245014643 putative substrate translocation pore; other site 688245014644 aromatic amino acid exporter; Provisional; Region: PRK11689 688245014645 EamA-like transporter family; Region: EamA; pfam00892 688245014646 RecX family; Region: RecX; cl00936 688245014647 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 688245014648 hexamer interface [polypeptide binding]; other site 688245014649 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 688245014650 Walker A motif; other site 688245014651 ATP binding site [chemical binding]; other site 688245014652 Walker B motif; other site 688245014653 Transcriptional regulators [Transcription]; Region: MarR; COG1846 688245014654 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 688245014655 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 688245014656 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 688245014657 active site 688245014658 phosphorylation site [posttranslational modification] 688245014659 intermolecular recognition site; other site 688245014660 dimerization interface [polypeptide binding]; other site 688245014661 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 688245014662 DNA binding site [nucleotide binding] 688245014663 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 688245014664 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 688245014665 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 688245014666 dimer interface [polypeptide binding]; other site 688245014667 phosphorylation site [posttranslational modification] 688245014668 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 688245014669 ATP binding site [chemical binding]; other site 688245014670 Mg2+ binding site [ion binding]; other site 688245014671 G-X-G motif; other site 688245014672 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 688245014673 Predicted membrane protein [Function unknown]; Region: COG5373 688245014674 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 688245014675 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 688245014676 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 688245014677 Proteins containing SET domain [General function prediction only]; Region: COG2940 688245014678 SET domain; Region: SET; pfam00856 688245014679 Cysteine-rich motif following a subset of SET domains; Region: PostSET; smart00508 688245014680 DNA topoisomerase III; Provisional; Region: PRK14724 688245014681 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 688245014682 active site 688245014683 putative interdomain interaction site [polypeptide binding]; other site 688245014684 putative metal-binding site [ion binding]; other site 688245014685 putative nucleotide binding site [chemical binding]; other site 688245014686 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 688245014687 domain I; other site 688245014688 DNA binding groove [nucleotide binding] 688245014689 phosphate binding site [ion binding]; other site 688245014690 domain II; other site 688245014691 domain III; other site 688245014692 nucleotide binding site [chemical binding]; other site 688245014693 catalytic site [active] 688245014694 domain IV; other site 688245014695 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 688245014696 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 688245014697 SWI complex, BAF60b domains; Region: SWIB; smart00151 688245014698 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 688245014699 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 688245014700 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 688245014701 Receptor family ligand binding region; Region: ANF_receptor; pfam01094 688245014702 putative ligand binding site [chemical binding]; other site 688245014703 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 688245014704 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 688245014705 active site 688245014706 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 688245014707 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 688245014708 acyl-activating enzyme (AAE) consensus motif; other site 688245014709 putative AMP binding site [chemical binding]; other site 688245014710 putative active site [active] 688245014711 putative CoA binding site [chemical binding]; other site 688245014712 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 688245014713 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 688245014714 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 688245014715 Malate dehydrogenase enzyme; Region: Malate_DH; pfam12434 688245014716 malic enzyme; Reviewed; Region: PRK12862 688245014717 Malic enzyme, N-terminal domain; Region: malic; pfam00390 688245014718 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 688245014719 putative NAD(P) binding site [chemical binding]; other site 688245014720 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 688245014721 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 688245014722 Sulfatase; Region: Sulfatase; cl19157 688245014723 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 688245014724 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 688245014725 trmE is a tRNA modification GTPase; Region: trmE; cd04164 688245014726 G1 box; other site 688245014727 GTP/Mg2+ binding site [chemical binding]; other site 688245014728 Switch I region; other site 688245014729 G2 box; other site 688245014730 Switch II region; other site 688245014731 G3 box; other site 688245014732 G4 box; other site 688245014733 G5 box; other site 688245014734 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 688245014735 Uncharacterized conserved protein [Function unknown]; Region: COG4127 688245014736 membrane protein insertase; Provisional; Region: PRK01318 688245014737 YidC periplasmic domain; Region: YidC_periplas; pfam14849 688245014738 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 688245014739 hypothetical protein; Provisional; Region: PRK14389 688245014740 Ribonuclease P; Region: Ribonuclease_P; cl00457 688245014741 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399