-- dump date 20140619_044525 -- class Genbank::misc_feature -- table misc_feature_note -- id note 583346000001 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 583346000002 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 583346000003 N-acetyl-D-glucosamine binding site [chemical binding]; other site 583346000004 catalytic residue [active] 583346000005 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 583346000006 Phage tail protein; Region: Sipho_tail; pfam05709 583346000007 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 583346000008 Holin family; Region: Phage_holin_4; pfam05105 583346000009 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cd00599 583346000010 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 583346000011 active site 583346000012 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 583346000013 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 583346000014 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 583346000015 nucleotide binding site [chemical binding]; other site 583346000016 putative protofilament interface [polypeptide binding]; other site 583346000017 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 583346000018 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 583346000019 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 583346000020 Helix-turn-helix domain; Region: HTH_36; pfam13730 583346000021 DNA polymerase III subunit epsilon; Validated; Region: PRK06807 583346000022 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 583346000023 active site 583346000024 catalytic site [active] 583346000025 substrate binding site [chemical binding]; other site 583346000026 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 583346000027 non-specific DNA binding site [nucleotide binding]; other site 583346000028 salt bridge; other site 583346000029 sequence-specific DNA binding site [nucleotide binding]; other site 583346000030 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 583346000031 non-specific DNA binding site [nucleotide binding]; other site 583346000032 salt bridge; other site 583346000033 sequence-specific DNA binding site [nucleotide binding]; other site 583346000034 ORF6N domain; Region: ORF6N; pfam10543 583346000035 Homeodomain-like domain; Region: HTH_23; pfam13384 583346000036 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 583346000037 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 583346000038 active site 583346000039 metal binding site [ion binding]; metal-binding site 583346000040 DNA binding site [nucleotide binding] 583346000041 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346000042 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 583346000043 Walker A/P-loop; other site 583346000044 ATP binding site [chemical binding]; other site 583346000045 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346000046 ABC transporter signature motif; other site 583346000047 Walker B; other site 583346000048 D-loop; other site 583346000049 H-loop/switch region; other site 583346000050 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 583346000051 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 583346000052 dimer interface [polypeptide binding]; other site 583346000053 ssDNA binding site [nucleotide binding]; other site 583346000054 tetramer (dimer of dimers) interface [polypeptide binding]; other site 583346000055 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in uncharacterized protein from Archaeoglobus fulgidus (Af0060) and its bacterial homologs; Region: NTP-PPase_Af0060_like; cd11533 583346000056 homodimer interface [polypeptide binding]; other site 583346000057 metal binding site [ion binding]; metal-binding site 583346000058 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 583346000059 ERCC4 domain; Region: ERCC4; cl10594 583346000060 CHC2 zinc finger; Region: zf-CHC2; cl17510 583346000061 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 583346000062 Domain of unknown function (DUF4391); Region: DUF4391; pfam14335 583346000063 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 583346000064 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 583346000065 active site 583346000066 Phage terminase, small subunit [DNA replication, recombination, and repair]; Region: COG3747 583346000067 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl17442 583346000068 Hom_end-associated Hint; Region: Hom_end_hint; pfam05203 583346000069 Phage Terminase; Region: Terminase_1; pfam03354 583346000070 Phage-related protein [Function unknown]; Region: COG4695 583346000071 Phage portal protein; Region: Phage_portal; pfam04860 583346000072 Clp protease; Region: CLP_protease; pfam00574 583346000073 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 583346000074 oligomer interface [polypeptide binding]; other site 583346000075 active site residues [active] 583346000076 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 583346000077 Phage capsid family; Region: Phage_capsid; pfam05065 583346000078 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 583346000079 oligomerization interface [polypeptide binding]; other site 583346000080 Bacteriophage head-tail adaptor [General function prediction only]; Region: COG5614 583346000081 phage protein, HK97 gp10 family; Region: phge_HK97_gp10; TIGR01725 583346000082 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 583346000083 Bacterial Ig-like domain; Region: Big_5; pfam13205 583346000084 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 583346000085 DnaA N-terminal domain; Region: DnaA_N; pfam11638 583346000086 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 583346000087 Walker A motif; other site 583346000088 ATP binding site [chemical binding]; other site 583346000089 Walker B motif; other site 583346000090 arginine finger; other site 583346000091 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 583346000092 DnaA box-binding interface [nucleotide binding]; other site 583346000093 DNA polymerase III subunit beta; Validated; Region: PRK05643 583346000094 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 583346000095 putative DNA binding surface [nucleotide binding]; other site 583346000096 dimer interface [polypeptide binding]; other site 583346000097 beta-clamp/clamp loader binding surface; other site 583346000098 beta-clamp/translesion DNA polymerase binding surface; other site 583346000099 S4 domain; Region: S4_2; pfam13275 583346000100 recombination protein F; Reviewed; Region: recF; PRK00064 583346000101 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 583346000102 Walker A/P-loop; other site 583346000103 ATP binding site [chemical binding]; other site 583346000104 Q-loop/lid; other site 583346000105 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346000106 ABC transporter signature motif; other site 583346000107 Walker B; other site 583346000108 D-loop; other site 583346000109 H-loop/switch region; other site 583346000110 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 583346000111 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 583346000112 Mg2+ binding site [ion binding]; other site 583346000113 G-X-G motif; other site 583346000114 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 583346000115 anchoring element; other site 583346000116 dimer interface [polypeptide binding]; other site 583346000117 ATP binding site [chemical binding]; other site 583346000118 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 583346000119 active site 583346000120 putative metal-binding site [ion binding]; other site 583346000121 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 583346000122 DNA gyrase subunit A; Validated; Region: PRK05560 583346000123 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 583346000124 CAP-like domain; other site 583346000125 active site 583346000126 primary dimer interface [polypeptide binding]; other site 583346000127 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 583346000128 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 583346000129 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 583346000130 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 583346000131 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 583346000132 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 583346000133 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 583346000134 Zn2+ binding site [ion binding]; other site 583346000135 Mg2+ binding site [ion binding]; other site 583346000136 Predicted small molecule binding protein (contains 3H domain) [General function prediction only]; Region: COG1827 583346000137 HTH domain; Region: HTH_11; pfam08279 583346000138 3H domain; Region: 3H; pfam02829 583346000139 hypothetical protein; Validated; Region: PRK00068 583346000140 Uncharacterized conserved protein [Function unknown]; Region: COG1615 583346000141 hydroxyglutarate oxidase; Provisional; Region: PRK11728 583346000142 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 583346000143 Protein of unknown function (DUF1667); Region: DUF1667; pfam07892 583346000144 seryl-tRNA synthetase; Provisional; Region: PRK05431 583346000145 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 583346000146 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 583346000147 dimer interface [polypeptide binding]; other site 583346000148 active site 583346000149 motif 1; other site 583346000150 motif 2; other site 583346000151 motif 3; other site 583346000152 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346000153 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 583346000154 active site 583346000155 phosphorylation site [posttranslational modification] 583346000156 intermolecular recognition site; other site 583346000157 dimerization interface [polypeptide binding]; other site 583346000158 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 583346000159 DNA binding site [nucleotide binding] 583346000160 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346000161 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 583346000162 dimer interface [polypeptide binding]; other site 583346000163 phosphorylation site [posttranslational modification] 583346000164 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 583346000165 ATP binding site [chemical binding]; other site 583346000166 Mg2+ binding site [ion binding]; other site 583346000167 G-X-G motif; other site 583346000168 VanZ like family; Region: VanZ; pfam04892 583346000169 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 583346000170 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 583346000171 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 583346000172 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 583346000173 Transposase; Region: DEDD_Tnp_IS110; pfam01548 583346000174 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 583346000175 Domain of unknown function (DUF2382); Region: DUF2382; pfam09557 583346000176 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 583346000177 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 583346000178 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 583346000179 putative active site [active] 583346000180 putative NTP binding site [chemical binding]; other site 583346000181 putative nucleic acid binding site [nucleotide binding]; other site 583346000182 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 583346000183 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346000184 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 583346000185 Walker A/P-loop; other site 583346000186 ATP binding site [chemical binding]; other site 583346000187 Q-loop/lid; other site 583346000188 ABC transporter signature motif; other site 583346000189 Walker B; other site 583346000190 D-loop; other site 583346000191 H-loop/switch region; other site 583346000192 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 583346000193 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346000194 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 583346000195 dimerization interface [polypeptide binding]; other site 583346000196 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 583346000197 dimer interface [polypeptide binding]; other site 583346000198 phosphorylation site [posttranslational modification] 583346000199 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 583346000200 ATP binding site [chemical binding]; other site 583346000201 Mg2+ binding site [ion binding]; other site 583346000202 G-X-G motif; other site 583346000203 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346000204 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 583346000205 active site 583346000206 phosphorylation site [posttranslational modification] 583346000207 intermolecular recognition site; other site 583346000208 dimerization interface [polypeptide binding]; other site 583346000209 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 583346000210 DNA binding site [nucleotide binding] 583346000211 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 583346000212 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 583346000213 putative active site [active] 583346000214 putative metal binding site [ion binding]; other site 583346000215 This domain contains a conserved N-terminal (F/Y)RG motif. It is functionally uncharacterised; Region: FRG; smart00901 583346000216 GtrA-like protein; Region: GtrA; pfam04138 583346000217 Transcriptional regulator [Transcription]; Region: LysR; COG0583 583346000218 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 583346000219 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 583346000220 dimerization interface [polypeptide binding]; other site 583346000221 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1_2; cd06113 583346000222 dimer interface [polypeptide binding]; other site 583346000223 active site 583346000224 citrylCoA binding site [chemical binding]; other site 583346000225 Citrate synthase; Region: Citrate_synt; pfam00285 583346000226 oxalacetate/citrate binding site [chemical binding]; other site 583346000227 coenzyme A binding site [chemical binding]; other site 583346000228 catalytic triad [active] 583346000229 EcsC protein family; Region: EcsC; pfam12787 583346000230 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 583346000231 2-isopropylmalate synthase; Validated; Region: PRK03739 583346000232 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 583346000233 active site 583346000234 catalytic residues [active] 583346000235 metal binding site [ion binding]; metal-binding site 583346000236 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 583346000237 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 583346000238 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 583346000239 Coenzyme A binding pocket [chemical binding]; other site 583346000240 phosphatidylserine decarboxylase; Provisional; Region: PRK00723 583346000241 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346000242 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346000243 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 583346000244 ABC1 family; Region: ABC1; pfam03109 583346000245 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 583346000246 active site 583346000247 ATP binding site [chemical binding]; other site 583346000248 Uncharacterized conserved protein [Function unknown]; Region: COG3937 583346000249 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 583346000250 nucleoside/Zn binding site; other site 583346000251 dimer interface [polypeptide binding]; other site 583346000252 catalytic motif [active] 583346000253 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 583346000254 non-specific DNA binding site [nucleotide binding]; other site 583346000255 salt bridge; other site 583346000256 sequence-specific DNA binding site [nucleotide binding]; other site 583346000257 Terminase small subunit; Region: Terminase_2; cl01513 583346000258 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 583346000259 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 583346000260 Cupin domain; Region: Cupin_2; pfam07883 583346000261 phosphoenolpyruvate synthase; Validated; Region: PRK06241 583346000262 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 583346000263 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 583346000264 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346000265 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346000266 Putative zinc-finger; Region: zf-HC2; pfam13490 583346000267 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 583346000268 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 583346000269 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 583346000270 DNA binding residues [nucleotide binding] 583346000271 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 583346000272 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 583346000273 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346000274 Walker A/P-loop; other site 583346000275 ATP binding site [chemical binding]; other site 583346000276 Q-loop/lid; other site 583346000277 ABC transporter signature motif; other site 583346000278 Walker B; other site 583346000279 D-loop; other site 583346000280 H-loop/switch region; other site 583346000281 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 583346000282 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346000283 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 583346000284 Walker A/P-loop; other site 583346000285 ATP binding site [chemical binding]; other site 583346000286 Q-loop/lid; other site 583346000287 ABC transporter signature motif; other site 583346000288 Walker B; other site 583346000289 D-loop; other site 583346000290 H-loop/switch region; other site 583346000291 Integrase core domain; Region: rve; pfam00665 583346000292 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 583346000293 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 583346000294 non-specific DNA binding site [nucleotide binding]; other site 583346000295 salt bridge; other site 583346000296 sequence-specific DNA binding site [nucleotide binding]; other site 583346000297 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 583346000298 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 583346000299 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 583346000300 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 583346000301 MarR family; Region: MarR_2; pfam12802 583346000302 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 583346000303 putative substrate translocation pore; other site 583346000304 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 583346000305 putative substrate translocation pore; other site 583346000306 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 583346000307 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 583346000308 Soluble P-type ATPase [General function prediction only]; Region: COG4087 583346000309 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 583346000310 Uncharacterized family 1; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_1; cd10158 583346000311 putative homodimer interface [polypeptide binding]; other site 583346000312 putative homotetramer interface [polypeptide binding]; other site 583346000313 putative metal binding site [ion binding]; other site 583346000314 putative homodimer-homodimer interface [polypeptide binding]; other site 583346000315 putative allosteric switch controlling residues; other site 583346000316 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 583346000317 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 583346000318 active site 583346000319 metal binding site [ion binding]; metal-binding site 583346000320 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 583346000321 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 583346000322 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 583346000323 GDP-binding site [chemical binding]; other site 583346000324 ACT binding site; other site 583346000325 IMP binding site; other site 583346000326 Acyl-ACP thioesterase; Region: Acyl-ACP_TE; pfam01643 583346000327 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 583346000328 active site 583346000329 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 583346000330 active site 583346000331 flavoprotein, HI0933 family; Region: TIGR00275 583346000332 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 583346000333 CoA binding domain; Region: CoA_binding_2; pfam13380 583346000334 DNA replication protein DnaC; Validated; Region: PRK06835 583346000335 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 583346000336 Walker A motif; other site 583346000337 ATP binding site [chemical binding]; other site 583346000338 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 583346000339 Replication initiation and membrane attachment; Region: DnaB_2; pfam07261 583346000340 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 583346000341 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 583346000342 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 583346000343 FMN binding site [chemical binding]; other site 583346000344 substrate binding site [chemical binding]; other site 583346000345 putative catalytic residue [active] 583346000346 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 583346000347 MarR family; Region: MarR; pfam01047 583346000348 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 583346000349 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 583346000350 dimer interface [polypeptide binding]; other site 583346000351 active site 583346000352 CoA binding pocket [chemical binding]; other site 583346000353 Phosphopantetheine attachment site; Region: PP-binding; cl09936 583346000354 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 583346000355 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 583346000356 FMN binding site [chemical binding]; other site 583346000357 substrate binding site [chemical binding]; other site 583346000358 putative catalytic residue [active] 583346000359 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 583346000360 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 583346000361 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 583346000362 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 583346000363 NAD(P) binding site [chemical binding]; other site 583346000364 homotetramer interface [polypeptide binding]; other site 583346000365 homodimer interface [polypeptide binding]; other site 583346000366 active site 583346000367 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 583346000368 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 583346000369 dimer interface [polypeptide binding]; other site 583346000370 active site 583346000371 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 583346000372 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 583346000373 carboxyltransferase (CT) interaction site; other site 583346000374 biotinylation site [posttranslational modification]; other site 583346000375 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 583346000376 biotin carboxylase; Validated; Region: PRK05586 583346000377 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 583346000378 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 583346000379 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 583346000380 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 583346000381 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 583346000382 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 583346000383 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 583346000384 Ferritin-like domain; Region: Ferritin; pfam00210 583346000385 ferroxidase diiron center [ion binding]; other site 583346000386 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 583346000387 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 583346000388 active site 583346000389 catalytic residues [active] 583346000390 Protein of unknown function, DUF606; Region: DUF606; pfam04657 583346000391 dUTPase; Region: dUTPase_2; pfam08761 583346000392 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in dimeric 2-Deoxyuridine 5'-triphosphate nucleotidohydrolase and similar proteins; Region: NTP-PPase_dUTPase; cd11527 583346000393 active site 583346000394 homodimer interface [polypeptide binding]; other site 583346000395 metal binding site [ion binding]; metal-binding site 583346000396 putative iron-only hydrogenase system regulator; Region: hyd_TM1266; TIGR03959 583346000397 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 583346000398 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 583346000399 putative dimer interface [polypeptide binding]; other site 583346000400 putative anticodon binding site; other site 583346000401 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 583346000402 homodimer interface [polypeptide binding]; other site 583346000403 motif 1; other site 583346000404 motif 2; other site 583346000405 active site 583346000406 motif 3; other site 583346000407 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 583346000408 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 583346000409 DNA binding site [nucleotide binding] 583346000410 active site 583346000411 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 583346000412 Interdomain contacts; other site 583346000413 Cytokine receptor motif; other site 583346000414 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 583346000415 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 583346000416 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 583346000417 Walker A/P-loop; other site 583346000418 ATP binding site [chemical binding]; other site 583346000419 Q-loop/lid; other site 583346000420 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 583346000421 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346000422 ABC transporter signature motif; other site 583346000423 Walker B; other site 583346000424 D-loop; other site 583346000425 H-loop/switch region; other site 583346000426 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 583346000427 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 583346000428 active site 583346000429 metal binding site [ion binding]; metal-binding site 583346000430 DNA binding site [nucleotide binding] 583346000431 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 583346000432 hypothetical protein; Provisional; Region: PRK05590 583346000433 SEC-C motif; Region: SEC-C; pfam02810 583346000434 Sporulation and spore germination; Region: Germane; pfam10646 583346000435 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 583346000436 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 583346000437 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 583346000438 hinge; other site 583346000439 active site 583346000440 Domain of Unknown Function (DUF1540); Region: DUF1540; pfam07561 583346000441 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 583346000442 glutamate racemase; Provisional; Region: PRK00865 583346000443 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 583346000444 non-specific DNA binding site [nucleotide binding]; other site 583346000445 salt bridge; other site 583346000446 sequence-specific DNA binding site [nucleotide binding]; other site 583346000447 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; cl10465 583346000448 Catalytic site [active] 583346000449 Heme NO binding; Region: HNOB; pfam07700 583346000450 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346000451 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 583346000452 dimer interface [polypeptide binding]; other site 583346000453 putative CheW interface [polypeptide binding]; other site 583346000454 Radical SAM superfamily; Region: Radical_SAM; pfam04055 583346000455 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 583346000456 FeS/SAM binding site; other site 583346000457 Uncharacterized membrane protein [Function unknown]; Region: COG3949 583346000458 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 583346000459 2-phosphosulfolactate phosphatase; Provisional; Region: PRK00886 583346000460 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 583346000461 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 583346000462 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 583346000463 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 583346000464 motif II; other site 583346000465 Iron only hydrogenase large subunit, C-terminal domain [General function prediction only]; Region: COG4624 583346000466 4Fe-4S binding domain; Region: Fer4; pfam00037 583346000467 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 583346000468 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 583346000469 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 583346000470 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 583346000471 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 583346000472 pur operon repressor; Provisional; Region: PRK09213 583346000473 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 583346000474 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 583346000475 active site 583346000476 regulatory protein SpoVG; Reviewed; Region: PRK13259 583346000477 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 583346000478 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 583346000479 Substrate binding site; other site 583346000480 Mg++ binding site; other site 583346000481 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 583346000482 active site 583346000483 substrate binding site [chemical binding]; other site 583346000484 CoA binding site [chemical binding]; other site 583346000485 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 583346000486 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 583346000487 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 583346000488 active site 583346000489 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346000490 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 583346000491 active site 583346000492 phosphorylation site [posttranslational modification] 583346000493 intermolecular recognition site; other site 583346000494 dimerization interface [polypeptide binding]; other site 583346000495 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 583346000496 DNA binding site [nucleotide binding] 583346000497 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346000498 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 583346000499 dimerization interface [polypeptide binding]; other site 583346000500 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 583346000501 dimer interface [polypeptide binding]; other site 583346000502 phosphorylation site [posttranslational modification] 583346000503 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 583346000504 ATP binding site [chemical binding]; other site 583346000505 Mg2+ binding site [ion binding]; other site 583346000506 G-X-G motif; other site 583346000507 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 583346000508 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 583346000509 protein binding site [polypeptide binding]; other site 583346000510 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 583346000511 putative active site [active] 583346000512 catalytic residue [active] 583346000513 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 583346000514 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 583346000515 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 583346000516 ATP binding site [chemical binding]; other site 583346000517 putative Mg++ binding site [ion binding]; other site 583346000518 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 583346000519 nucleotide binding region [chemical binding]; other site 583346000520 ATP-binding site [chemical binding]; other site 583346000521 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 583346000522 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 583346000523 SurA N-terminal domain; Region: SurA_N_3; cl07813 583346000524 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 583346000525 stage V sporulation protein T; Region: spore_V_T; TIGR02851 583346000526 looped-hinge helix DNA binding domain, AbrB family; Region: lp_hng_hel_AbrB; TIGR01439 583346000527 stage V sporulation protein B; Region: spore_V_B; TIGR02900 583346000528 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 583346000529 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 583346000530 N-terminal S-AdoMet dependent methylase domain of Bacillus subtilis YabN and related proteins; Region: YabN_N; cd11723 583346000531 putative SAM binding site [chemical binding]; other site 583346000532 putative homodimer interface [polypeptide binding]; other site 583346000533 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 583346000534 homodimer interface [polypeptide binding]; other site 583346000535 metal binding site [ion binding]; metal-binding site 583346000536 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 583346000537 homodimer interface [polypeptide binding]; other site 583346000538 active site 583346000539 putative chemical substrate binding site [chemical binding]; other site 583346000540 metal binding site [ion binding]; metal-binding site 583346000541 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 583346000542 IHF dimer interface [polypeptide binding]; other site 583346000543 IHF - DNA interface [nucleotide binding]; other site 583346000544 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 583346000545 RNA binding surface [nucleotide binding]; other site 583346000546 YabP family; Region: YabP; cl06766 583346000547 Spore cortex protein YabQ (Spore_YabQ); Region: Spore_YabQ; cl09801 583346000548 Septum formation initiator; Region: DivIC; pfam04977 583346000549 hypothetical protein; Provisional; Region: PRK05807 583346000550 S1_RPS1_repeat_hs4: 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_hs4; cd05692 583346000551 RNA binding site [nucleotide binding]; other site 583346000552 stage II sporulation protein E; Region: spore_II_E; TIGR02865 583346000553 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 583346000554 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 583346000555 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 583346000556 Ligand Binding Site [chemical binding]; other site 583346000557 TilS substrate C-terminal domain; Region: TilS_C; smart00977 583346000558 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 583346000559 active site 583346000560 FtsH Extracellular; Region: FtsH_ext; pfam06480 583346000561 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 583346000562 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 583346000563 Walker A motif; other site 583346000564 ATP binding site [chemical binding]; other site 583346000565 Walker B motif; other site 583346000566 arginine finger; other site 583346000567 Peptidase family M41; Region: Peptidase_M41; pfam01434 583346000568 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 583346000569 subunit interaction site [polypeptide binding]; other site 583346000570 PHB binding site; other site 583346000571 CoenzymeA binding site [chemical binding]; other site 583346000572 pantothenate kinase; Reviewed; Region: PRK13318 583346000573 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 583346000574 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 583346000575 FMN binding site [chemical binding]; other site 583346000576 active site 583346000577 catalytic residues [active] 583346000578 substrate binding site [chemical binding]; other site 583346000579 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 583346000580 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 583346000581 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 583346000582 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 583346000583 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 583346000584 dimer interface [polypeptide binding]; other site 583346000585 putative anticodon binding site; other site 583346000586 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 583346000587 motif 1; other site 583346000588 active site 583346000589 motif 2; other site 583346000590 motif 3; other site 583346000591 glycyl-tRNA synthetase; Provisional; Region: PRK04173 583346000592 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 583346000593 motif 1; other site 583346000594 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 583346000595 active site 583346000596 motif 2; other site 583346000597 motif 3; other site 583346000598 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 583346000599 anticodon binding site; other site 583346000600 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01710 583346000601 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 583346000602 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 583346000603 elongation factor G; Reviewed; Region: PRK12740 583346000604 G1 box; other site 583346000605 putative GEF interaction site [polypeptide binding]; other site 583346000606 GTP/Mg2+ binding site [chemical binding]; other site 583346000607 Switch I region; other site 583346000608 G2 box; other site 583346000609 G3 box; other site 583346000610 Switch II region; other site 583346000611 G4 box; other site 583346000612 G5 box; other site 583346000613 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 583346000614 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 583346000615 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 583346000616 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 583346000617 catalytic core [active] 583346000618 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; pfam05848 583346000619 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 583346000620 UvrB/uvrC motif; Region: UVR; pfam02151 583346000621 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 583346000622 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 583346000623 ADP binding site [chemical binding]; other site 583346000624 phosphagen binding site; other site 583346000625 substrate specificity loop; other site 583346000626 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 583346000627 Clp amino terminal domain; Region: Clp_N; pfam02861 583346000628 Clp amino terminal domain; Region: Clp_N; pfam02861 583346000629 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 583346000630 Walker A motif; other site 583346000631 ATP binding site [chemical binding]; other site 583346000632 Walker B motif; other site 583346000633 arginine finger; other site 583346000634 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 583346000635 Walker A motif; other site 583346000636 ATP binding site [chemical binding]; other site 583346000637 Walker B motif; other site 583346000638 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 583346000639 DNA repair protein RadA; Provisional; Region: PRK11823 583346000640 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 583346000641 Walker A motif/ATP binding site; other site 583346000642 ATP binding site [chemical binding]; other site 583346000643 Walker B motif; other site 583346000644 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 583346000645 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 583346000646 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 583346000647 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 583346000648 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 583346000649 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 583346000650 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 583346000651 putative active site [active] 583346000652 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 583346000653 substrate binding site; other site 583346000654 dimer interface; other site 583346000655 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 583346000656 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 583346000657 active site 583346000658 HIGH motif; other site 583346000659 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 583346000660 KMSKS motif; other site 583346000661 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 583346000662 tRNA binding surface [nucleotide binding]; other site 583346000663 anticodon binding site; other site 583346000664 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 583346000665 active site 583346000666 metal binding site [ion binding]; metal-binding site 583346000667 dimerization interface [polypeptide binding]; other site 583346000668 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 583346000669 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 583346000670 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 583346000671 YacP-like NYN domain; Region: NYN_YacP; pfam05991 583346000672 RNA polymerase factor sigma-70; Validated; Region: PRK08295 583346000673 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 583346000674 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 583346000675 elongation factor Tu; Reviewed; Region: PRK00049 583346000676 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 583346000677 G1 box; other site 583346000678 GEF interaction site [polypeptide binding]; other site 583346000679 GTP/Mg2+ binding site [chemical binding]; other site 583346000680 Switch I region; other site 583346000681 G2 box; other site 583346000682 G3 box; other site 583346000683 Switch II region; other site 583346000684 G4 box; other site 583346000685 G5 box; other site 583346000686 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 583346000687 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 583346000688 Antibiotic Binding Site [chemical binding]; other site 583346000689 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 583346000690 Preprotein translocase subunit SecE [Intracellular trafficking and secretion]; Region: SecE; COG0690 583346000691 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 583346000692 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 583346000693 putative homodimer interface [polypeptide binding]; other site 583346000694 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 583346000695 heterodimer interface [polypeptide binding]; other site 583346000696 homodimer interface [polypeptide binding]; other site 583346000697 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 583346000698 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 583346000699 23S rRNA interface [nucleotide binding]; other site 583346000700 L7/L12 interface [polypeptide binding]; other site 583346000701 putative thiostrepton binding site; other site 583346000702 L25 interface [polypeptide binding]; other site 583346000703 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 583346000704 mRNA/rRNA interface [nucleotide binding]; other site 583346000705 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 583346000706 23S rRNA interface [nucleotide binding]; other site 583346000707 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 583346000708 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 583346000709 core dimer interface [polypeptide binding]; other site 583346000710 peripheral dimer interface [polypeptide binding]; other site 583346000711 L10 interface [polypeptide binding]; other site 583346000712 L11 interface [polypeptide binding]; other site 583346000713 putative EF-Tu interaction site [polypeptide binding]; other site 583346000714 putative EF-G interaction site [polypeptide binding]; other site 583346000715 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 583346000716 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 583346000717 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 583346000718 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 583346000719 RPB1 interaction site [polypeptide binding]; other site 583346000720 RPB10 interaction site [polypeptide binding]; other site 583346000721 RPB11 interaction site [polypeptide binding]; other site 583346000722 RPB3 interaction site [polypeptide binding]; other site 583346000723 RPB12 interaction site [polypeptide binding]; other site 583346000724 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 583346000725 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 583346000726 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 583346000727 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 583346000728 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 583346000729 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 583346000730 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 583346000731 G-loop; other site 583346000732 Apocytochrome F, C-terminal; Region: Apocytochr_F_C; cl03168 583346000733 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 583346000734 DNA binding site [nucleotide binding] 583346000735 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 583346000736 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 583346000737 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 583346000738 S17 interaction site [polypeptide binding]; other site 583346000739 S8 interaction site; other site 583346000740 16S rRNA interaction site [nucleotide binding]; other site 583346000741 streptomycin interaction site [chemical binding]; other site 583346000742 23S rRNA interaction site [nucleotide binding]; other site 583346000743 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 583346000744 30S ribosomal protein S7; Validated; Region: PRK05302 583346000745 elongation factor G; Reviewed; Region: PRK00007 583346000746 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 583346000747 G1 box; other site 583346000748 putative GEF interaction site [polypeptide binding]; other site 583346000749 GTP/Mg2+ binding site [chemical binding]; other site 583346000750 Switch I region; other site 583346000751 G2 box; other site 583346000752 G3 box; other site 583346000753 Switch II region; other site 583346000754 G4 box; other site 583346000755 G5 box; other site 583346000756 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 583346000757 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 583346000758 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 583346000759 elongation factor Tu; Reviewed; Region: PRK00049 583346000760 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 583346000761 G1 box; other site 583346000762 GEF interaction site [polypeptide binding]; other site 583346000763 GTP/Mg2+ binding site [chemical binding]; other site 583346000764 Switch I region; other site 583346000765 G2 box; other site 583346000766 G3 box; other site 583346000767 Switch II region; other site 583346000768 G4 box; other site 583346000769 G5 box; other site 583346000770 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 583346000771 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 583346000772 Antibiotic Binding Site [chemical binding]; other site 583346000773 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 583346000774 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 583346000775 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 583346000776 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 583346000777 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 583346000778 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 583346000779 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 583346000780 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 583346000781 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 583346000782 putative translocon binding site; other site 583346000783 protein-rRNA interface [nucleotide binding]; other site 583346000784 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 583346000785 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 583346000786 G-X-X-G motif; other site 583346000787 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 583346000788 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 583346000789 23S rRNA interface [nucleotide binding]; other site 583346000790 5S rRNA interface [nucleotide binding]; other site 583346000791 putative antibiotic binding site [chemical binding]; other site 583346000792 L25 interface [polypeptide binding]; other site 583346000793 L27 interface [polypeptide binding]; other site 583346000794 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 583346000795 putative translocon interaction site; other site 583346000796 signal recognition particle (SRP54) interaction site; other site 583346000797 L23 interface [polypeptide binding]; other site 583346000798 trigger factor interaction site; other site 583346000799 23S rRNA interface [nucleotide binding]; other site 583346000800 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 583346000801 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 583346000802 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 583346000803 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 583346000804 RNA binding site [nucleotide binding]; other site 583346000805 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 583346000806 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 583346000807 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 583346000808 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 583346000809 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 583346000810 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 583346000811 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 583346000812 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 583346000813 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 583346000814 23S rRNA interface [nucleotide binding]; other site 583346000815 5S rRNA interface [nucleotide binding]; other site 583346000816 L27 interface [polypeptide binding]; other site 583346000817 L5 interface [polypeptide binding]; other site 583346000818 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 583346000819 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 583346000820 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 583346000821 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 583346000822 23S rRNA binding site [nucleotide binding]; other site 583346000823 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 583346000824 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 583346000825 SecY translocase; Region: SecY; pfam00344 583346000826 adenylate kinase; Reviewed; Region: adk; PRK00279 583346000827 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 583346000828 AMP-binding site [chemical binding]; other site 583346000829 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 583346000830 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 583346000831 active site 583346000832 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 583346000833 rRNA binding site [nucleotide binding]; other site 583346000834 predicted 30S ribosome binding site; other site 583346000835 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 583346000836 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 583346000837 30S ribosomal protein S13; Region: bact_S13; TIGR03631 583346000838 30S ribosomal protein S11; Validated; Region: PRK05309 583346000839 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 583346000840 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 583346000841 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 583346000842 RNA binding surface [nucleotide binding]; other site 583346000843 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 583346000844 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 583346000845 alphaNTD - beta interaction site [polypeptide binding]; other site 583346000846 alphaNTD homodimer interface [polypeptide binding]; other site 583346000847 alphaNTD - beta' interaction site [polypeptide binding]; other site 583346000848 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 583346000849 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 583346000850 cobalt transporter ATP-binding subunit; Provisional; Region: PRK13633 583346000851 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 583346000852 Walker A/P-loop; other site 583346000853 ATP binding site [chemical binding]; other site 583346000854 Q-loop/lid; other site 583346000855 ABC transporter signature motif; other site 583346000856 Walker B; other site 583346000857 D-loop; other site 583346000858 H-loop/switch region; other site 583346000859 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13637 583346000860 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 583346000861 Walker A/P-loop; other site 583346000862 ATP binding site [chemical binding]; other site 583346000863 Q-loop/lid; other site 583346000864 ABC transporter signature motif; other site 583346000865 Walker B; other site 583346000866 D-loop; other site 583346000867 H-loop/switch region; other site 583346000868 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 583346000869 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 583346000870 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 583346000871 dimerization interface 3.5A [polypeptide binding]; other site 583346000872 active site 583346000873 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 583346000874 23S rRNA interface [nucleotide binding]; other site 583346000875 L3 interface [polypeptide binding]; other site 583346000876 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 583346000877 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 583346000878 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 583346000879 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 583346000880 catalytic residues [active] 583346000881 catalytic nucleophile [active] 583346000882 Recombinase; Region: Recombinase; pfam07508 583346000883 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 583346000884 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 583346000885 Streptomycin adenylyltransferase; Region: Adenyl_transf; pfam04439 583346000886 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 583346000887 histidinol phosphate phosphatase, HisJ family; Region: hisJ_fam; TIGR01856 583346000888 active site 583346000889 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 583346000890 Major Facilitator Superfamily; Region: MFS_1; pfam07690 583346000891 putative substrate translocation pore; other site 583346000892 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 583346000893 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 583346000894 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 583346000895 Protein of unknown function (DUF523); Region: DUF523; pfam04463 583346000896 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 583346000897 FMN binding site [chemical binding]; other site 583346000898 dimer interface [polypeptide binding]; other site 583346000899 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346000900 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346000901 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 583346000902 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 583346000903 Cysteine-rich VLP; Region: Cys_rich_VLP; pfam14194 583346000904 Domain of unknown function (DUF4366); Region: DUF4366; pfam14283 583346000905 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 583346000906 NlpC/P60 family; Region: NLPC_P60; pfam00877 583346000907 AAA-like domain; Region: AAA_10; pfam12846 583346000908 Domain of unknown function DUF87; Region: DUF87; pfam01935 583346000909 PrgI family protein; Region: PrgI; pfam12666 583346000910 SpoVG; Region: SpoVG; cl00915 583346000911 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 583346000912 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 583346000913 Walker A motif; other site 583346000914 ATP binding site [chemical binding]; other site 583346000915 Walker B motif; other site 583346000916 Antirestriction protein (ArdA); Region: ArdA; pfam07275 583346000917 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 583346000918 ParB-like nuclease domain; Region: ParB; smart00470 583346000919 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 583346000920 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 583346000921 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 583346000922 conserved hypothetical protein (putative transposase or invertase); Region: T_den_put_tspse; TIGR01784 583346000923 PD-(D/E)XK nuclease family transposase; Region: PDDEXK_2; pfam12784 583346000924 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 583346000925 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 583346000926 active site 583346000927 metal binding site [ion binding]; metal-binding site 583346000928 Predicted transcriptional regulators [Transcription]; Region: COG1725 583346000929 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 583346000930 DNA-binding site [nucleotide binding]; DNA binding site 583346000931 Coenzyme B12-dependent glutamate mutase epsilon subunit-like family; contains proteins similar to Clostridium cochlearium glutamate mutase (Glm) and Streptomyces tendae Tu901 NikV. Glm catalyzes a carbon-skeleton rearrangement of L-glutamate to...; Region: Glm_e; cl02025 583346000932 substrate binding site [chemical binding]; other site 583346000933 B12 cofactor binding site [chemical binding]; other site 583346000934 homodimer (epsilon-epsilon) interface [polypeptide binding]; other site 583346000935 fumarate hydratase; Provisional; Region: PRK06246 583346000936 Fumarase C-terminus; Region: Fumerase_C; cl00795 583346000937 Apo-citrate lyase phosphoribosyl-dephospho-CoA transferase; Region: CitX; cl01498 583346000938 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 583346000939 binding surface 583346000940 TPR motif; other site 583346000941 Tetratricopeptide repeat; Region: TPR_12; pfam13424 583346000942 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 583346000943 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 583346000944 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 583346000945 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 583346000946 Tetratricopeptide repeat; Region: TPR_12; pfam13424 583346000947 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 583346000948 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 583346000949 catalytic residues [active] 583346000950 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 583346000951 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 583346000952 Uncharacterized conserved protein [Function unknown]; Region: COG1624 583346000953 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 583346000954 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4856 583346000955 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 583346000956 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 583346000957 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 583346000958 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 583346000959 active site 583346000960 substrate binding site [chemical binding]; other site 583346000961 metal binding site [ion binding]; metal-binding site 583346000962 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 583346000963 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 583346000964 glutaminase active site [active] 583346000965 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 583346000966 dimer interface [polypeptide binding]; other site 583346000967 active site 583346000968 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 583346000969 dimer interface [polypeptide binding]; other site 583346000970 active site 583346000971 Major Facilitator Superfamily; Region: MFS_1; pfam07690 583346000972 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 583346000973 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 583346000974 Flavodoxin domain; Region: Flavodoxin_5; cl17428 583346000975 4Fe-4S binding domain; Region: Fer4; pfam00037 583346000976 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 583346000977 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346000978 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 583346000979 non-specific DNA binding site [nucleotide binding]; other site 583346000980 salt bridge; other site 583346000981 sequence-specific DNA binding site [nucleotide binding]; other site 583346000982 Cupin domain; Region: Cupin_2; pfam07883 583346000983 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 583346000984 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 583346000985 FeS/SAM binding site; other site 583346000986 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 583346000987 Pyruvate formate lyase 2 and related enzymes; Region: PFL2_DhaB_BssA; cd01677 583346000988 dimer interface [polypeptide binding]; other site 583346000989 active site 583346000990 glycine loop; other site 583346000991 Nucleoside recognition; Region: Gate; pfam07670 583346000992 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 583346000993 pyrroline-5-carboxylate reductase; Region: PLN02688 583346000994 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 583346000995 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 583346000996 homodimer interaction site [polypeptide binding]; other site 583346000997 cofactor binding site; other site 583346000998 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 583346000999 AIR carboxylase; Region: AIRC; smart01001 583346001000 Predicted oxidoreductases of the aldo/keto reductase family [General function prediction only]; Region: COG1453 583346001001 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 583346001002 active site 583346001003 catalytic tetrad [active] 583346001004 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 583346001005 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 583346001006 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 583346001007 DNA binding residues [nucleotide binding] 583346001008 putative dimer interface [polypeptide binding]; other site 583346001009 hypothetical protein; Provisional; Region: PRK04194 583346001010 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 583346001011 camphor resistance protein CrcB; Provisional; Region: PRK14232 583346001012 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 583346001013 Spore germination protein; Region: Spore_permease; cl17796 583346001014 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 583346001015 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 583346001016 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 583346001017 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 583346001018 MarR family; Region: MarR; pfam01047 583346001019 ferric uptake regulator; Provisional; Region: fur; PRK09462 583346001020 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 583346001021 metal binding site 2 [ion binding]; metal-binding site 583346001022 putative DNA binding helix; other site 583346001023 metal binding site 1 [ion binding]; metal-binding site 583346001024 dimer interface [polypeptide binding]; other site 583346001025 structural Zn2+ binding site [ion binding]; other site 583346001026 Nitroreductase-like family 3. 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_3; cd02139 583346001027 putative FMN binding site [chemical binding]; other site 583346001028 methionine sulfoxide reductase A; Provisional; Region: PRK14054 583346001029 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 583346001030 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 583346001031 active site 583346001032 FMN binding site [chemical binding]; other site 583346001033 substrate binding site [chemical binding]; other site 583346001034 putative catalytic residue [active] 583346001035 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 583346001036 Beta-lactamase; Region: Beta-lactamase; pfam00144 583346001037 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 583346001038 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 583346001039 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 583346001040 potential frameshift: common BLAST hit: gi|15894140|ref|NP_347489.1| HD superfamily hydrolase 583346001041 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 583346001042 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 583346001043 Zn2+ binding site [ion binding]; other site 583346001044 Mg2+ binding site [ion binding]; other site 583346001045 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346001046 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 583346001047 non-specific DNA binding site [nucleotide binding]; other site 583346001048 salt bridge; other site 583346001049 sequence-specific DNA binding site [nucleotide binding]; other site 583346001050 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 583346001051 putative active site [active] 583346001052 Protein of unknown function (DUF2837); Region: DUF2837; pfam10997 583346001053 RNA polymerase factor sigma-70; Validated; Region: PRK06811 583346001054 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 583346001055 Predicted transcriptional regulator [Transcription]; Region: COG2378 583346001056 HTH domain; Region: HTH_11; pfam08279 583346001057 WYL domain; Region: WYL; pfam13280 583346001058 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 583346001059 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 583346001060 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 583346001061 DNA binding residues [nucleotide binding] 583346001062 dimer interface [polypeptide binding]; other site 583346001063 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 583346001064 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 583346001065 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 583346001066 DNA binding site [nucleotide binding] 583346001067 active site 583346001068 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 583346001069 active site 583346001070 catalytic residues [active] 583346001071 metal binding site [ion binding]; metal-binding site 583346001072 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346001073 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 583346001074 active site 583346001075 phosphorylation site [posttranslational modification] 583346001076 intermolecular recognition site; other site 583346001077 dimerization interface [polypeptide binding]; other site 583346001078 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 583346001079 DNA binding site [nucleotide binding] 583346001080 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346001081 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 583346001082 phosphorylation site [posttranslational modification] 583346001083 dimer interface [polypeptide binding]; other site 583346001084 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 583346001085 ATP binding site [chemical binding]; other site 583346001086 Mg2+ binding site [ion binding]; other site 583346001087 G-X-G motif; other site 583346001088 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 583346001089 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 583346001090 catalytic residue [active] 583346001091 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 583346001092 catalytic residues [active] 583346001093 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 583346001094 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 583346001095 peroxiredoxin; Region: AhpC; TIGR03137 583346001096 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 583346001097 dimer interface [polypeptide binding]; other site 583346001098 decamer (pentamer of dimers) interface [polypeptide binding]; other site 583346001099 catalytic triad [active] 583346001100 peroxidatic and resolving cysteines [active] 583346001101 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 583346001102 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 583346001103 Walker A/P-loop; other site 583346001104 ATP binding site [chemical binding]; other site 583346001105 Q-loop/lid; other site 583346001106 ABC transporter signature motif; other site 583346001107 Walker B; other site 583346001108 D-loop; other site 583346001109 H-loop/switch region; other site 583346001110 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 583346001111 FtsX-like permease family; Region: FtsX; pfam02687 583346001112 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 583346001113 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 583346001114 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 583346001115 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346001116 Walker A/P-loop; other site 583346001117 ATP binding site [chemical binding]; other site 583346001118 Q-loop/lid; other site 583346001119 ABC transporter signature motif; other site 583346001120 Walker B; other site 583346001121 D-loop; other site 583346001122 H-loop/switch region; other site 583346001123 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 583346001124 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 583346001125 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 583346001126 Walker A/P-loop; other site 583346001127 ATP binding site [chemical binding]; other site 583346001128 Q-loop/lid; other site 583346001129 ABC transporter signature motif; other site 583346001130 Walker B; other site 583346001131 D-loop; other site 583346001132 H-loop/switch region; other site 583346001133 nitrogenase iron-iron protein, alpha chain; Region: ANFD; TIGR01861 583346001134 Nitrogenase_VFe_alpha -like: Nitrogenase VFe protein, alpha subunit like. This group contains proteins similar to the alpha subunits of, the VFe protein of the vanadium-dependent (V-) nitrogenase and the FeFe protein of the iron only (Fe-) nitrogenase...; Region: Nitrogenase_VFe_alpha; cd01977 583346001135 Vanadium/alternative nitrogenase delta subunit; Region: AnfG_VnfG; pfam03139 583346001136 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346001137 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346001138 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 583346001139 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 583346001140 catalytic triad [active] 583346001141 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 583346001142 putative heme d1 biosynthesis radical SAM protein NirJ1; Region: rSAM_NirJ1; TIGR04054 583346001143 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 583346001144 FeS/SAM binding site; other site 583346001145 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 583346001146 putative heme d1 biosynthesis radical SAM protein NirJ2; Region: rSAM_NirJ2; TIGR04055 583346001147 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 583346001148 FeS/SAM binding site; other site 583346001149 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 583346001150 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 583346001151 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 583346001152 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 583346001153 Coenzyme A binding pocket [chemical binding]; other site 583346001154 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 583346001155 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 583346001156 generic binding surface I; other site 583346001157 generic binding surface II; other site 583346001158 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 583346001159 Zn2+ binding site [ion binding]; other site 583346001160 Mg2+ binding site [ion binding]; other site 583346001161 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_2; cd06160 583346001162 Peptidase family M50; Region: Peptidase_M50; pfam02163 583346001163 active site 583346001164 putative substrate binding region [chemical binding]; other site 583346001165 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 583346001166 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 583346001167 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 583346001168 Walker A/P-loop; other site 583346001169 ATP binding site [chemical binding]; other site 583346001170 Q-loop/lid; other site 583346001171 ABC transporter signature motif; other site 583346001172 Walker B; other site 583346001173 D-loop; other site 583346001174 H-loop/switch region; other site 583346001175 Predicted transcriptional regulators [Transcription]; Region: COG1725 583346001176 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 583346001177 DNA-binding site [nucleotide binding]; DNA binding site 583346001178 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 583346001179 Major Facilitator Superfamily; Region: MFS_1; pfam07690 583346001180 putative substrate translocation pore; other site 583346001181 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 583346001182 MarR family; Region: MarR_2; pfam12802 583346001183 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 583346001184 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 583346001185 active site 583346001186 phosphorylation site [posttranslational modification] 583346001187 intermolecular recognition site; other site 583346001188 dimerization interface [polypeptide binding]; other site 583346001189 LytTr DNA-binding domain; Region: LytTR; smart00850 583346001190 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 583346001191 ATP binding site [chemical binding]; other site 583346001192 Mg2+ binding site [ion binding]; other site 583346001193 G-X-G motif; other site 583346001194 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 583346001195 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 583346001196 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 583346001197 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 583346001198 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 583346001199 Walker A/P-loop; other site 583346001200 ATP binding site [chemical binding]; other site 583346001201 Q-loop/lid; other site 583346001202 ABC transporter signature motif; other site 583346001203 Walker B; other site 583346001204 D-loop; other site 583346001205 H-loop/switch region; other site 583346001206 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 583346001207 DHHW protein; Region: DHHW; pfam14286 583346001208 DHHW protein; Region: DHHW; pfam14286 583346001209 Accessory gene regulator B; Region: AgrB; pfam04647 583346001210 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 583346001211 Penicillinase repressor; Region: Pencillinase_R; cl17580 583346001212 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 583346001213 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 583346001214 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 583346001215 DNA binding residues [nucleotide binding] 583346001216 D-glucuronyl C5-epimerase C-terminus; Region: C5-epim_C; pfam06662 583346001217 Penicillinase repressor; Region: Pencillinase_R; pfam03965 583346001218 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 583346001219 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 583346001220 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 583346001221 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 583346001222 Substrate binding site [chemical binding]; other site 583346001223 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 583346001224 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 583346001225 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346001226 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346001227 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346001228 Phosphotransferase system cellobiose-specific component IIC [Carbohydrate transport and metabolism]; Region: CelB; COG1455 583346001229 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 583346001230 Putative cyclase; Region: Cyclase; pfam04199 583346001231 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 583346001232 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 583346001233 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 583346001234 dimerization interface [polypeptide binding]; other site 583346001235 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346001236 dimer interface [polypeptide binding]; other site 583346001237 putative CheW interface [polypeptide binding]; other site 583346001238 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 583346001239 RecT family; Region: RecT; pfam03837 583346001240 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 583346001241 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 583346001242 E-class dimer interface [polypeptide binding]; other site 583346001243 P-class dimer interface [polypeptide binding]; other site 583346001244 active site 583346001245 Cu2+ binding site [ion binding]; other site 583346001246 Zn2+ binding site [ion binding]; other site 583346001247 Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]; Region: HgdB; COG1775 583346001248 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 583346001249 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 583346001250 Ligand Binding Site [chemical binding]; other site 583346001251 QueT transporter; Region: QueT; cl01932 583346001252 threonine dehydratase; Provisional; Region: PRK08198 583346001253 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 583346001254 tetramer interface [polypeptide binding]; other site 583346001255 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346001256 catalytic residue [active] 583346001257 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 583346001258 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 583346001259 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 583346001260 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 583346001261 dimer interface [polypeptide binding]; other site 583346001262 [2Fe-2S] cluster binding site [ion binding]; other site 583346001263 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 583346001264 dimerization interface [polypeptide binding]; other site 583346001265 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346001266 dimer interface [polypeptide binding]; other site 583346001267 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 583346001268 putative CheW interface [polypeptide binding]; other site 583346001269 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 583346001270 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 583346001271 Nitrogen regulatory protein P-II; Region: P-II; smart00938 583346001272 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 583346001273 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 583346001274 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 583346001275 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 583346001276 active site residue [active] 583346001277 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; cl00436 583346001278 CPxP motif; other site 583346001279 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 583346001280 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 583346001281 dimerization interface [polypeptide binding]; other site 583346001282 putative DNA binding site [nucleotide binding]; other site 583346001283 putative Zn2+ binding site [ion binding]; other site 583346001284 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 583346001285 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 583346001286 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 583346001287 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 583346001288 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 583346001289 ATP binding site [chemical binding]; other site 583346001290 Mg++ binding site [ion binding]; other site 583346001291 motif III; other site 583346001292 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 583346001293 nucleotide binding region [chemical binding]; other site 583346001294 ATP-binding site [chemical binding]; other site 583346001295 RNA recognition motif in Bacillus subtilis ATP-dependent RNA helicase YxiN and similar proteins; Region: RRM_BsYxiN_like; cd12500 583346001296 RNA binding site [nucleotide binding]; other site 583346001297 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 583346001298 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 583346001299 ligand binding site [chemical binding]; other site 583346001300 NAD binding site [chemical binding]; other site 583346001301 dimerization interface [polypeptide binding]; other site 583346001302 catalytic site [active] 583346001303 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 583346001304 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 583346001305 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 583346001306 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 583346001307 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 583346001308 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 583346001309 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 583346001310 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346001311 homodimer interface [polypeptide binding]; other site 583346001312 catalytic residue [active] 583346001313 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 583346001314 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 583346001315 Potassium binding sites [ion binding]; other site 583346001316 Cesium cation binding sites [ion binding]; other site 583346001317 Formiminotransferase-cyclodeaminase; Region: FTCD_C; pfam04961 583346001318 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 583346001319 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 583346001320 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 583346001321 homodimer interface [polypeptide binding]; other site 583346001322 NADP binding site [chemical binding]; other site 583346001323 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 583346001324 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 583346001325 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 583346001326 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 583346001327 UGMP family protein; Validated; Region: PRK09604 583346001328 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 583346001329 pyruvate carboxylase; Reviewed; Region: PRK12999 583346001330 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 583346001331 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 583346001332 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 583346001333 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 583346001334 active site 583346001335 catalytic residues [active] 583346001336 metal binding site [ion binding]; metal-binding site 583346001337 homodimer binding site [polypeptide binding]; other site 583346001338 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 583346001339 carboxyltransferase (CT) interaction site; other site 583346001340 biotinylation site [posttranslational modification]; other site 583346001341 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 583346001342 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 583346001343 active site 583346001344 nucleophile elbow; other site 583346001345 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 583346001346 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 583346001347 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 583346001348 Peptidase M16C associated; Region: M16C_assoc; pfam08367 583346001349 Domain of unknown function DUF77; Region: DUF77; pfam01910 583346001350 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 583346001351 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 583346001352 active site 583346001353 phosphorylation site [posttranslational modification] 583346001354 intermolecular recognition site; other site 583346001355 dimerization interface [polypeptide binding]; other site 583346001356 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 583346001357 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 583346001358 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 583346001359 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 583346001360 ABC transporter; Region: ABC_tran_2; pfam12848 583346001361 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 583346001362 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 583346001363 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 583346001364 CoA binding domain; Region: CoA_binding; pfam02629 583346001365 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 583346001366 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 583346001367 substrate binding site [chemical binding]; other site 583346001368 oxyanion hole (OAH) forming residues; other site 583346001369 trimer interface [polypeptide binding]; other site 583346001370 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 583346001371 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 583346001372 active site 583346001373 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 583346001374 Ligand binding site [chemical binding]; other site 583346001375 Electron transfer flavoprotein domain; Region: ETF; pfam01012 583346001376 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 583346001377 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 583346001378 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 583346001379 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 583346001380 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 583346001381 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 583346001382 ferredoxin-NADP(+) reductase subunit alpha; Reviewed; Region: PRK06222 583346001383 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)...; Region: DHOD_e_trans_like1; cd06219 583346001384 FAD binding pocket [chemical binding]; other site 583346001385 FAD binding motif [chemical binding]; other site 583346001386 phosphate binding motif [ion binding]; other site 583346001387 beta-alpha-beta structure motif; other site 583346001388 NAD binding pocket [chemical binding]; other site 583346001389 Iron coordination center [ion binding]; other site 583346001390 putative oxidoreductase; Provisional; Region: PRK12831 583346001391 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 583346001392 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 583346001393 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 583346001394 8-oxoguanine DNA glycosylase, N-terminal domain; Region: OGG_N; pfam07934 583346001395 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 583346001396 minor groove reading motif; other site 583346001397 helix-hairpin-helix signature motif; other site 583346001398 substrate binding pocket [chemical binding]; other site 583346001399 active site 583346001400 Uncharacterized conserved protein [Function unknown]; Region: COG0398 583346001401 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 583346001402 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 583346001403 oligomerisation interface [polypeptide binding]; other site 583346001404 mobile loop; other site 583346001405 roof hairpin; other site 583346001406 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 583346001407 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 583346001408 ring oligomerisation interface [polypeptide binding]; other site 583346001409 ATP/Mg binding site [chemical binding]; other site 583346001410 stacking interactions; other site 583346001411 hinge regions; other site 583346001412 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 583346001413 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 583346001414 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 583346001415 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 583346001416 active site 583346001417 GMP synthase; Reviewed; Region: guaA; PRK00074 583346001418 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 583346001419 AMP/PPi binding site [chemical binding]; other site 583346001420 candidate oxyanion hole; other site 583346001421 catalytic triad [active] 583346001422 potential glutamine specificity residues [chemical binding]; other site 583346001423 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 583346001424 ATP Binding subdomain [chemical binding]; other site 583346001425 Ligand Binding sites [chemical binding]; other site 583346001426 Dimerization subdomain; other site 583346001427 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 583346001428 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 583346001429 active site 583346001430 Int/Topo IB signature motif; other site 583346001431 DNA binding site [nucleotide binding] 583346001432 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 583346001433 large terminase protein; Provisional; Region: 17; PHA02533 583346001434 Terminase-like family; Region: Terminase_6; pfam03237 583346001435 large terminase protein; Provisional; Region: 17; PHA02533 583346001436 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 583346001437 Archaeal/vacuolar-type H+-ATPase subunit A [Energy production and conversion]; Region: NtpA; COG1155 583346001438 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 583346001439 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 583346001440 dimanganese center [ion binding]; other site 583346001441 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; cd00312 583346001442 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 583346001443 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346001444 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 583346001445 non-specific DNA binding site [nucleotide binding]; other site 583346001446 salt bridge; other site 583346001447 sequence-specific DNA binding site [nucleotide binding]; other site 583346001448 HTH-like domain; Region: HTH_21; pfam13276 583346001449 Integrase core domain; Region: rve; pfam00665 583346001450 DDE domain; Region: DDE_Tnp_IS240; pfam13610 583346001451 Integrase core domain; Region: rve_3; pfam13683 583346001452 Transposase; Region: HTH_Tnp_1; cl17663 583346001453 VanZ like family; Region: VanZ; pfam04892 583346001454 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 583346001455 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 583346001456 Protein of unknown function (DUF3189); Region: DUF3189; pfam11385 583346001457 Protein of unknown function (DUF3892); Region: DUF3892; pfam13031 583346001458 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 583346001459 RNA binding site [nucleotide binding]; other site 583346001460 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 583346001461 active site 583346001462 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346001463 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346001464 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 583346001465 amino acid carrier protein; Region: agcS; TIGR00835 583346001466 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 583346001467 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 583346001468 D-cysteine desulfhydrase; Validated; Region: PRK03910 583346001469 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 583346001470 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 583346001471 catalytic residue [active] 583346001472 Protein of unknown function (DUF445); Region: DUF445; pfam04286 583346001473 Protein of unknown function (DUF445); Region: DUF445; pfam04286 583346001474 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 583346001475 MreB/Mbl protein; Region: MreB_Mbl; pfam06723 583346001476 nucleotide binding site [chemical binding]; other site 583346001477 putative NEF/HSP70 interaction site [polypeptide binding]; other site 583346001478 SBD interface [polypeptide binding]; other site 583346001479 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 583346001480 rod shape-determining protein Mbl; Provisional; Region: PRK13928 583346001481 nucleotide binding site [chemical binding]; other site 583346001482 putative NEF/HSP70 interaction site [polypeptide binding]; other site 583346001483 SBD interface [polypeptide binding]; other site 583346001484 cell shape determining protein, MreB/Mrl family; Region: mreB; TIGR00904 583346001485 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 583346001486 nucleotide binding site [chemical binding]; other site 583346001487 putative NEF/HSP70 interaction site [polypeptide binding]; other site 583346001488 SBD interface [polypeptide binding]; other site 583346001489 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 583346001490 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 583346001491 nucleotide binding site [chemical binding]; other site 583346001492 putative NEF/HSP70 interaction site [polypeptide binding]; other site 583346001493 SBD interface [polypeptide binding]; other site 583346001494 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 583346001495 metal ion-dependent adhesion site (MIDAS); other site 583346001496 chromosome segregation protein; Provisional; Region: PRK03918 583346001497 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 583346001498 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 583346001499 ligand binding site [chemical binding]; other site 583346001500 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346001501 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346001502 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346001503 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; cd00229 583346001504 active site 583346001505 catalytic triad [active] 583346001506 oxyanion hole [active] 583346001507 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 583346001508 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 583346001509 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 583346001510 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346001511 Walker A/P-loop; other site 583346001512 ATP binding site [chemical binding]; other site 583346001513 Q-loop/lid; other site 583346001514 ABC transporter signature motif; other site 583346001515 Walker B; other site 583346001516 D-loop; other site 583346001517 H-loop/switch region; other site 583346001518 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 583346001519 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 583346001520 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 583346001521 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346001522 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346001523 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346001524 LytTr DNA-binding domain; Region: LytTR; smart00850 583346001525 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 583346001526 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 583346001527 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 583346001528 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 583346001529 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 583346001530 Uncharacterized protein conserved in bacteria (DUF2128); Region: DUF2128; pfam09901 583346001531 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_cladeD; cd03379 583346001532 active site clefts [active] 583346001533 zinc binding site [ion binding]; other site 583346001534 dimer interface [polypeptide binding]; other site 583346001535 small acid-soluble spore protein Tlp; Provisional; Region: PRK03830 583346001536 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 583346001537 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 583346001538 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 583346001539 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 583346001540 transglutaminase; Provisional; Region: tgl; PRK03187 583346001541 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 583346001542 Zn binding site [ion binding]; other site 583346001543 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 583346001544 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 583346001545 putative active site [active] 583346001546 heme pocket [chemical binding]; other site 583346001547 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 583346001548 Walker A motif; other site 583346001549 ATP binding site [chemical binding]; other site 583346001550 Walker B motif; other site 583346001551 arginine finger; other site 583346001552 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 583346001553 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 583346001554 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 583346001555 putative active site [active] 583346001556 metal binding site [ion binding]; metal-binding site 583346001557 benzoate transport; Region: 2A0115; TIGR00895 583346001558 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 583346001559 putative substrate translocation pore; other site 583346001560 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 583346001561 isocitrate dehydrogenase; Validated; Region: PRK08299 583346001562 Putative cyclase; Region: Cyclase; cl00814 583346001563 Predicted transcriptional regulator [Transcription]; Region: COG3655 583346001564 salt bridge; other site 583346001565 non-specific DNA binding site [nucleotide binding]; other site 583346001566 sequence-specific DNA binding site [nucleotide binding]; other site 583346001567 Cupin domain; Region: Cupin_2; cl17218 583346001568 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 583346001569 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 583346001570 Coenzyme A binding pocket [chemical binding]; other site 583346001571 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 583346001572 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 583346001573 DNA binding residues [nucleotide binding] 583346001574 dimer interface [polypeptide binding]; other site 583346001575 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 583346001576 Acyltransferase family; Region: Acyl_transf_3; pfam01757 583346001577 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 583346001578 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 583346001579 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 583346001580 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 583346001581 DNA-binding domain of DNA mismatch repair MUTS family; Region: MUTSd; smart00533 583346001582 MutS domain III; Region: MutS_III; pfam05192 583346001583 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346001584 Walker A/P-loop; other site 583346001585 ATP binding site [chemical binding]; other site 583346001586 Q-loop/lid; other site 583346001587 ABC transporter signature motif; other site 583346001588 Walker B; other site 583346001589 D-loop; other site 583346001590 H-loop/switch region; other site 583346001591 Transposase, Mutator family; Region: Transposase_mut; pfam00872 583346001592 Transposase, Mutator family; Region: Transposase_mut; pfam00872 583346001593 MULE transposase domain; Region: MULE; pfam10551 583346001594 DNA topoisomerase III; Provisional; Region: PRK07726 583346001595 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 583346001596 active site 583346001597 putative interdomain interaction site [polypeptide binding]; other site 583346001598 putative metal-binding site [ion binding]; other site 583346001599 putative nucleotide binding site [chemical binding]; other site 583346001600 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; cl11986 583346001601 domain I; other site 583346001602 DNA binding groove [nucleotide binding] 583346001603 phosphate binding site [ion binding]; other site 583346001604 domain II; other site 583346001605 domain III; other site 583346001606 nucleotide binding site [chemical binding]; other site 583346001607 catalytic site [active] 583346001608 domain IV; other site 583346001609 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 583346001610 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 583346001611 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346001612 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 583346001613 active site 583346001614 phosphorylation site [posttranslational modification] 583346001615 intermolecular recognition site; other site 583346001616 dimerization interface [polypeptide binding]; other site 583346001617 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 583346001618 DNA binding site [nucleotide binding] 583346001619 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346001620 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 583346001621 dimerization interface [polypeptide binding]; other site 583346001622 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 583346001623 dimer interface [polypeptide binding]; other site 583346001624 phosphorylation site [posttranslational modification] 583346001625 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 583346001626 ATP binding site [chemical binding]; other site 583346001627 Mg2+ binding site [ion binding]; other site 583346001628 G-X-G motif; other site 583346001629 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 583346001630 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 583346001631 NAD(P) binding site [chemical binding]; other site 583346001632 active site 583346001633 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 583346001634 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 583346001635 NAD(P) binding site [chemical binding]; other site 583346001636 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 583346001637 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 583346001638 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 583346001639 motif II; other site 583346001640 Predicted transcriptional regulators [Transcription]; Region: COG1733 583346001641 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 583346001642 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 583346001643 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 583346001644 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 583346001645 nucleotide binding site [chemical binding]; other site 583346001646 Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved...; Region: Tubulin_FtsZ; cl10017 583346001647 nucleotide binding site [chemical binding]; other site 583346001648 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 583346001649 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 583346001650 DNA binding residues [nucleotide binding] 583346001651 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 583346001652 CoenzymeA binding site [chemical binding]; other site 583346001653 subunit interaction site [polypeptide binding]; other site 583346001654 PHB binding site; other site 583346001655 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 583346001656 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 583346001657 active site 583346001658 phosphorylation site [posttranslational modification] 583346001659 intermolecular recognition site; other site 583346001660 dimerization interface [polypeptide binding]; other site 583346001661 CheB methylesterase; Region: CheB_methylest; pfam01339 583346001662 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 583346001663 Protein of unknown function (DUF2000); Region: DUF2000; pfam09391 583346001664 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 583346001665 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 583346001666 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 583346001667 Predicted transcriptional regulators [Transcription]; Region: COG1695 583346001668 Transcriptional regulator PadR-like family; Region: PadR; cl17335 583346001669 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_23; cd09011 583346001670 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 583346001671 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 583346001672 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 583346001673 putative active site [active] 583346001674 putative NTP binding site [chemical binding]; other site 583346001675 putative nucleic acid binding site [nucleotide binding]; other site 583346001676 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 583346001677 active site 583346001678 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 583346001679 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 583346001680 G-X-G motif; other site 583346001681 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 583346001682 Transcriptional regulator [Transcription]; Region: LysR; COG0583 583346001683 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 583346001684 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 583346001685 dimerization interface [polypeptide binding]; other site 583346001686 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 583346001687 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 583346001688 active site 583346001689 FMN binding site [chemical binding]; other site 583346001690 substrate binding site [chemical binding]; other site 583346001691 putative catalytic residue [active] 583346001692 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 583346001693 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 583346001694 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 583346001695 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 583346001696 Major Facilitator Superfamily; Region: MFS_1; pfam07690 583346001697 putative substrate translocation pore; other site 583346001698 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 583346001699 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 583346001700 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 583346001701 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 583346001702 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 583346001703 Protein tyrosine phosphatase, catalytic domain motif; Region: PTPc_motif; smart00404 583346001704 active site 583346001705 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 583346001706 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 583346001707 NodB motif; other site 583346001708 active site 583346001709 catalytic site [active] 583346001710 Zn binding site [ion binding]; other site 583346001711 GxGYxY sequence motif in domain of unknown function; Region: GxGYxYP; pfam14323 583346001712 prolyl-tRNA synthetase; Provisional; Region: PRK08661 583346001713 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_arch_euk; cd00778 583346001714 dimer interface [polypeptide binding]; other site 583346001715 motif 1; other site 583346001716 active site 583346001717 motif 2; other site 583346001718 motif 3; other site 583346001719 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 583346001720 anticodon binding site; other site 583346001721 zinc-binding site [ion binding]; other site 583346001722 FtsH Extracellular; Region: FtsH_ext; pfam06480 583346001723 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 583346001724 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 583346001725 Walker A motif; other site 583346001726 ATP binding site [chemical binding]; other site 583346001727 Walker B motif; other site 583346001728 arginine finger; other site 583346001729 Peptidase family M41; Region: Peptidase_M41; pfam01434 583346001730 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 583346001731 Part of AAA domain; Region: AAA_19; pfam13245 583346001732 Family description; Region: UvrD_C_2; pfam13538 583346001733 biotin synthase; Provisional; Region: PRK07094 583346001734 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 583346001735 FeS/SAM binding site; other site 583346001736 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 583346001737 aspartate kinase; Reviewed; Region: PRK06635 583346001738 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 583346001739 putative nucleotide binding site [chemical binding]; other site 583346001740 putative catalytic residues [active] 583346001741 putative Mg ion binding site [ion binding]; other site 583346001742 putative aspartate binding site [chemical binding]; other site 583346001743 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins; Region: ACT_AK-LysC-DapG-like_1; cd04891 583346001744 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 583346001745 putative allosteric regulatory residue; other site 583346001746 diaminopimelate decarboxylase; Region: lysA; TIGR01048 583346001747 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 583346001748 active site 583346001749 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 583346001750 substrate binding site [chemical binding]; other site 583346001751 catalytic residues [active] 583346001752 dimer interface [polypeptide binding]; other site 583346001753 Putative glucoamylase; Region: Glycoamylase; pfam10091 583346001754 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 583346001755 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 583346001756 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 583346001757 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 583346001758 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 583346001759 active site 583346001760 HIGH motif; other site 583346001761 dimer interface [polypeptide binding]; other site 583346001762 KMSKS motif; other site 583346001763 Catalytic domain of Protein Kinases; Region: PKc; cd00180 583346001764 active site 583346001765 ATP binding site [chemical binding]; other site 583346001766 substrate binding site [chemical binding]; other site 583346001767 activation loop (A-loop); other site 583346001768 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 583346001769 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 583346001770 FeS/SAM binding site; other site 583346001771 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 583346001772 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 583346001773 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 583346001774 YheO-like PAS domain; Region: PAS_6; pfam08348 583346001775 HTH domain; Region: HTH_22; pfam13309 583346001776 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 583346001777 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 583346001778 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 583346001779 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 583346001780 metal binding site [ion binding]; metal-binding site 583346001781 active site 583346001782 I-site; other site 583346001783 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 583346001784 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346001785 Walker A/P-loop; other site 583346001786 ATP binding site [chemical binding]; other site 583346001787 Q-loop/lid; other site 583346001788 ABC transporter signature motif; other site 583346001789 Walker B; other site 583346001790 D-loop; other site 583346001791 H-loop/switch region; other site 583346001792 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 583346001793 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 583346001794 TM-ABC transporter signature motif; other site 583346001795 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 583346001796 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 583346001797 zinc binding site [ion binding]; other site 583346001798 putative ligand binding site [chemical binding]; other site 583346001799 Histidine Utilizing Protein, the hut operon positive regulatory protein; Region: HutP; cd11640 583346001800 hexamer interface [polypeptide binding]; other site 583346001801 RNA binding site [nucleotide binding]; other site 583346001802 Histidine-zinc binding site [chemical binding]; other site 583346001803 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 583346001804 S-adenosylmethionine binding site [chemical binding]; other site 583346001805 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 583346001806 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 583346001807 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 583346001808 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 583346001809 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 583346001810 switch II; other site 583346001811 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 583346001812 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 583346001813 P loop nucleotide binding; other site 583346001814 switch II; other site 583346001815 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 583346001816 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 583346001817 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 583346001818 metal binding site 2 [ion binding]; metal-binding site 583346001819 putative DNA binding helix; other site 583346001820 metal binding site 1 [ion binding]; metal-binding site 583346001821 dimer interface [polypeptide binding]; other site 583346001822 structural Zn2+ binding site [ion binding]; other site 583346001823 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 583346001824 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 583346001825 DNA binding residues [nucleotide binding] 583346001826 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 583346001827 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 583346001828 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 583346001829 trimerization site [polypeptide binding]; other site 583346001830 active site 583346001831 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 583346001832 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 583346001833 FAD binding site [chemical binding]; other site 583346001834 homotetramer interface [polypeptide binding]; other site 583346001835 substrate binding pocket [chemical binding]; other site 583346001836 catalytic base [active] 583346001837 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 583346001838 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 583346001839 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 583346001840 DNA binding residues [nucleotide binding] 583346001841 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 583346001842 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 583346001843 Uncharacterized conserved protein [Function unknown]; Region: COG5495 583346001844 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 583346001845 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 583346001846 oligomerization interface [polypeptide binding]; other site 583346001847 active site 583346001848 metal binding site [ion binding]; metal-binding site 583346001849 Pantoate-beta-alanine ligase; Region: PanC; cd00560 583346001850 pantoate--beta-alanine ligase; Region: panC; TIGR00018 583346001851 active site 583346001852 ATP-binding site [chemical binding]; other site 583346001853 pantoate-binding site; other site 583346001854 HXXH motif; other site 583346001855 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 583346001856 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 583346001857 active site 583346001858 motif I; other site 583346001859 motif II; other site 583346001860 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 583346001861 SpoVR like protein; Region: SpoVR; pfam04293 583346001862 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 583346001863 metal ion-dependent adhesion site (MIDAS); other site 583346001864 Putative Ser protein kinase [Signal transduction mechanisms]; Region: PrkA; COG2766 583346001865 AAA ATPase domain; Region: AAA_16; pfam13191 583346001866 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 583346001867 Transcriptional regulators [Transcription]; Region: MarR; COG1846 583346001868 MarR family; Region: MarR_2; pfam12802 583346001869 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 583346001870 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 583346001871 putative substrate translocation pore; other site 583346001872 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 583346001873 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 583346001874 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 583346001875 HlyD family secretion protein; Region: HlyD_3; pfam13437 583346001876 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 583346001877 HlyD family secretion protein; Region: HlyD_3; pfam13437 583346001878 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 583346001879 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 583346001880 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 583346001881 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 583346001882 catalytic site [active] 583346001883 subunit interface [polypeptide binding]; other site 583346001884 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 583346001885 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 583346001886 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 583346001887 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 583346001888 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 583346001889 ATP-grasp domain; Region: ATP-grasp_4; cl17255 583346001890 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 583346001891 IMP binding site; other site 583346001892 dimer interface [polypeptide binding]; other site 583346001893 interdomain contacts; other site 583346001894 partial ornithine binding site; other site 583346001895 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 583346001896 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 583346001897 metal binding site [ion binding]; metal-binding site 583346001898 dimer interface [polypeptide binding]; other site 583346001899 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 583346001900 dimer interface [polypeptide binding]; other site 583346001901 phosphorylation site [posttranslational modification] 583346001902 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 583346001903 ATP binding site [chemical binding]; other site 583346001904 Mg2+ binding site [ion binding]; other site 583346001905 G-X-G motif; other site 583346001906 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346001907 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 583346001908 active site 583346001909 phosphorylation site [posttranslational modification] 583346001910 intermolecular recognition site; other site 583346001911 dimerization interface [polypeptide binding]; other site 583346001912 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 583346001913 DNA binding site [nucleotide binding] 583346001914 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 583346001915 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 583346001916 Ligand binding site; other site 583346001917 Putative Catalytic site; other site 583346001918 DXD motif; other site 583346001919 Predicted membrane protein [Function unknown]; Region: COG2246 583346001920 GtrA-like protein; Region: GtrA; pfam04138 583346001921 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 583346001922 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 583346001923 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 583346001924 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 583346001925 tRNA; other site 583346001926 putative tRNA binding site [nucleotide binding]; other site 583346001927 putative NADP binding site [chemical binding]; other site 583346001928 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 583346001929 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 583346001930 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 583346001931 inhibitor-cofactor binding pocket; inhibition site 583346001932 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346001933 catalytic residue [active] 583346001934 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 583346001935 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 583346001936 putative DNA binding site [nucleotide binding]; other site 583346001937 putative Zn2+ binding site [ion binding]; other site 583346001938 AsnC family; Region: AsnC_trans_reg; pfam01037 583346001939 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 583346001940 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 583346001941 hexamer interface [polypeptide binding]; other site 583346001942 ligand binding site [chemical binding]; other site 583346001943 putative active site [active] 583346001944 NAD(P) binding site [chemical binding]; other site 583346001945 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 583346001946 Predicted integral membrane protein [Function unknown]; Region: COG5542 583346001947 EDD domain protein, DegV family; Region: DegV; TIGR00762 583346001948 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 583346001949 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 583346001950 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 583346001951 Walker A/P-loop; other site 583346001952 ATP binding site [chemical binding]; other site 583346001953 Q-loop/lid; other site 583346001954 ABC transporter signature motif; other site 583346001955 Walker B; other site 583346001956 D-loop; other site 583346001957 H-loop/switch region; other site 583346001958 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 583346001959 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 583346001960 dimer interface [polypeptide binding]; other site 583346001961 conserved gate region; other site 583346001962 ABC-ATPase subunit interface; other site 583346001963 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 583346001964 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 583346001965 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 583346001966 Protein of unknown function DUF116; Region: DUF116; pfam01976 583346001967 DNA polymerase I; Provisional; Region: PRK05755 583346001968 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 583346001969 active site 583346001970 metal binding site 1 [ion binding]; metal-binding site 583346001971 putative 5' ssDNA interaction site; other site 583346001972 metal binding site 3; metal-binding site 583346001973 metal binding site 2 [ion binding]; metal-binding site 583346001974 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 583346001975 putative DNA binding site [nucleotide binding]; other site 583346001976 putative metal binding site [ion binding]; other site 583346001977 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 583346001978 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 583346001979 active site 583346001980 DNA binding site [nucleotide binding] 583346001981 catalytic site [active] 583346001982 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 583346001983 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 583346001984 CoA-binding site [chemical binding]; other site 583346001985 ATP-binding [chemical binding]; other site 583346001986 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 583346001987 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 583346001988 N-acetyl-D-glucosamine binding site [chemical binding]; other site 583346001989 catalytic residue [active] 583346001990 short chain dehydrogenase; Provisional; Region: PRK06701 583346001991 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 583346001992 NAD binding site [chemical binding]; other site 583346001993 metal binding site [ion binding]; metal-binding site 583346001994 active site 583346001995 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 583346001996 dimanganese center [ion binding]; other site 583346001997 CotJB protein; Region: CotJB; pfam12652 583346001998 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 583346001999 dinuclear metal binding motif [ion binding]; other site 583346002000 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 583346002001 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 583346002002 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 583346002003 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346002004 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 583346002005 dimerization interface [polypeptide binding]; other site 583346002006 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 583346002007 dimer interface [polypeptide binding]; other site 583346002008 phosphorylation site [posttranslational modification] 583346002009 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 583346002010 ATP binding site [chemical binding]; other site 583346002011 Mg2+ binding site [ion binding]; other site 583346002012 G-X-G motif; other site 583346002013 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346002014 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 583346002015 dimerization interface [polypeptide binding]; other site 583346002016 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 583346002017 dimer interface [polypeptide binding]; other site 583346002018 phosphorylation site [posttranslational modification] 583346002019 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 583346002020 ATP binding site [chemical binding]; other site 583346002021 Mg2+ binding site [ion binding]; other site 583346002022 G-X-G motif; other site 583346002023 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346002024 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 583346002025 active site 583346002026 phosphorylation site [posttranslational modification] 583346002027 intermolecular recognition site; other site 583346002028 dimerization interface [polypeptide binding]; other site 583346002029 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 583346002030 DNA binding site [nucleotide binding] 583346002031 EamA-like transporter family; Region: EamA; pfam00892 583346002032 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 583346002033 EamA-like transporter family; Region: EamA; pfam00892 583346002034 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 583346002035 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 583346002036 metal binding site [ion binding]; metal-binding site 583346002037 dimer interface [polypeptide binding]; other site 583346002038 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 583346002039 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 583346002040 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 583346002041 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 583346002042 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 583346002043 catalytic residue [active] 583346002044 dihydroxyacetone kinase, phosphoprotein-dependent, L subunit; Region: dha_L_ycgS; TIGR02365 583346002045 phosphotransferase mannnose-specific family component IIA; Provisional; Region: PRK14484 583346002046 active pocket/dimerization site; other site 583346002047 active site 583346002048 phosphorylation site [posttranslational modification] 583346002049 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 583346002050 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 583346002051 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346002052 homodimer interface [polypeptide binding]; other site 583346002053 catalytic residue [active] 583346002054 L-serine dehydratase, iron-sulfur-dependent, beta subunit; Region: sda_beta; TIGR00719 583346002055 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 583346002056 C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit; Region: ACT_LSD; cd04903 583346002057 putative L-serine binding site [chemical binding]; other site 583346002058 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 583346002059 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 583346002060 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 583346002061 DNA-binding site [nucleotide binding]; DNA binding site 583346002062 RNA-binding motif; other site 583346002063 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 583346002064 Major Facilitator Superfamily; Region: MFS_1; pfam07690 583346002065 putative substrate translocation pore; other site 583346002066 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 583346002067 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 583346002068 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346002069 catalytic residue [active] 583346002070 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 583346002071 GAF domain; Region: GAF_3; pfam13492 583346002072 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 583346002073 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 583346002074 metal binding site [ion binding]; metal-binding site 583346002075 active site 583346002076 I-site; other site 583346002077 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 583346002078 Family description; Region: UvrD_C_2; pfam13538 583346002079 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 583346002080 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 583346002081 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 583346002082 dimer interface [polypeptide binding]; other site 583346002083 conserved gate region; other site 583346002084 putative PBP binding loops; other site 583346002085 ABC-ATPase subunit interface; other site 583346002086 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 583346002087 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 583346002088 substrate binding pocket [chemical binding]; other site 583346002089 membrane-bound complex binding site; other site 583346002090 hinge residues; other site 583346002091 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 583346002092 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 583346002093 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 583346002094 Peptidase M16C associated; Region: M16C_assoc; pfam08367 583346002095 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 583346002096 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 583346002097 catalytic loop [active] 583346002098 iron binding site [ion binding]; other site 583346002099 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 583346002100 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 583346002101 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 583346002102 active site 583346002103 catalytic residues [active] 583346002104 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 583346002105 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; cd00384 583346002106 dimer interface [polypeptide binding]; other site 583346002107 active site 583346002108 Schiff base residues; other site 583346002109 threonine-phosphate decarboxylase; Provisional; Region: PRK06358 583346002110 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 583346002111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346002112 homodimer interface [polypeptide binding]; other site 583346002113 catalytic residue [active] 583346002114 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP; Region: CobA_CobO_BtuR; cl17276 583346002115 cobalamin biosynthesis protein CbiG; Validated; Region: PRK05788 583346002116 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 583346002117 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 583346002118 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 583346002119 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 583346002120 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 583346002121 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 583346002122 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 583346002123 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; cl17708 583346002124 domain interfaces; other site 583346002125 active site 583346002126 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 583346002127 diphthine synthase; Region: dph5; TIGR00522 583346002128 active site 583346002129 SAM binding site [chemical binding]; other site 583346002130 homodimer interface [polypeptide binding]; other site 583346002131 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 583346002132 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 583346002133 active site 583346002134 Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]; Region: CbiK; COG4822 583346002135 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_N; cd03412 583346002136 active site 583346002137 C-terminal domain interface [polypeptide binding]; other site 583346002138 Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the...; Region: CbiK_C; cd03413 583346002139 active site 583346002140 N-terminal domain interface [polypeptide binding]; other site 583346002141 cobyric acid synthase; Provisional; Region: PRK00784 583346002142 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 583346002143 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 583346002144 catalytic triad [active] 583346002145 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 583346002146 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 583346002147 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 583346002148 catalytic triad [active] 583346002149 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 583346002150 precorrin-8X methylmutase; Validated; Region: cbiC; PRK05575 583346002151 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 583346002152 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 583346002153 active site 583346002154 putative homodimer interface [polypeptide binding]; other site 583346002155 SAM binding site [chemical binding]; other site 583346002156 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 583346002157 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 583346002158 S-adenosylmethionine binding site [chemical binding]; other site 583346002159 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 583346002160 active site 583346002161 SAM binding site [chemical binding]; other site 583346002162 homodimer interface [polypeptide binding]; other site 583346002163 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 583346002164 active site 583346002165 SAM binding site [chemical binding]; other site 583346002166 homodimer interface [polypeptide binding]; other site 583346002167 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 583346002168 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 583346002169 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 583346002170 active site 583346002171 SAM binding site [chemical binding]; other site 583346002172 homodimer interface [polypeptide binding]; other site 583346002173 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 583346002174 homotrimer interface [polypeptide binding]; other site 583346002175 Walker A motif; other site 583346002176 GTP binding site [chemical binding]; other site 583346002177 Walker B motif; other site 583346002178 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 583346002179 catalytic core [active] 583346002180 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 583346002181 Predicted transcriptional regulators [Transcription]; Region: COG1733 583346002182 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 583346002183 putative DNA binding site [nucleotide binding]; other site 583346002184 putative Zn2+ binding site [ion binding]; other site 583346002185 Cache domain; Region: Cache_1; pfam02743 583346002186 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 583346002187 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346002188 dimer interface [polypeptide binding]; other site 583346002189 putative CheW interface [polypeptide binding]; other site 583346002190 NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria; Region: NADPH_BDH; cd08179 583346002191 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 583346002192 putative active site [active] 583346002193 metal binding site [ion binding]; metal-binding site 583346002194 M20 Peptidase Arginine utilization protein, RocB; Region: M20_ArgE_RocB; cd05654 583346002195 putative metal binding site [ion binding]; other site 583346002196 putative dimer interface [polypeptide binding]; other site 583346002197 amino acid transporter; Region: 2A0306; TIGR00909 583346002198 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 583346002199 putative Mg(2+) transport ATPase; Provisional; Region: PRK09977 583346002200 MgtC family; Region: MgtC; pfam02308 583346002201 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 583346002202 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 583346002203 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 583346002204 phosphate binding site [ion binding]; other site 583346002205 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 583346002206 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 583346002207 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 583346002208 CAAX protease self-immunity; Region: Abi; pfam02517 583346002209 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 583346002210 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 583346002211 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 583346002212 active site 583346002213 FMN binding site [chemical binding]; other site 583346002214 substrate binding site [chemical binding]; other site 583346002215 putative catalytic residue [active] 583346002216 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 583346002217 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 583346002218 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 583346002219 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 583346002220 Quinolinate synthetase A protein; Region: NadA; pfam02445 583346002221 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 583346002222 L-aspartate oxidase; Provisional; Region: PRK06175 583346002223 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 583346002224 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 583346002225 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 583346002226 dimerization interface [polypeptide binding]; other site 583346002227 active site 583346002228 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 583346002229 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 583346002230 Zn2+ binding site [ion binding]; other site 583346002231 Mg2+ binding site [ion binding]; other site 583346002232 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 583346002233 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 583346002234 G1 box; other site 583346002235 putative GEF interaction site [polypeptide binding]; other site 583346002236 GTP/Mg2+ binding site [chemical binding]; other site 583346002237 Switch I region; other site 583346002238 G2 box; other site 583346002239 G3 box; other site 583346002240 Switch II region; other site 583346002241 G4 box; other site 583346002242 G5 box; other site 583346002243 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 583346002244 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 583346002245 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 583346002246 active site 583346002247 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 583346002248 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; pfam07155 583346002249 Probable zinc-binding domain; Region: zf-trcl; pfam13451 583346002250 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 583346002251 Divergent AAA domain; Region: AAA_4; pfam04326 583346002252 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 583346002253 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 583346002254 active site 583346002255 HIGH motif; other site 583346002256 dimer interface [polypeptide binding]; other site 583346002257 KMSKS motif; other site 583346002258 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 583346002259 RNA binding surface [nucleotide binding]; other site 583346002260 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 583346002261 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 583346002262 Coenzyme A binding pocket [chemical binding]; other site 583346002263 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 583346002264 Glycoprotease family; Region: Peptidase_M22; pfam00814 583346002265 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 583346002266 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 583346002267 Zn2+ binding site [ion binding]; other site 583346002268 Mg2+ binding site [ion binding]; other site 583346002269 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 583346002270 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 583346002271 Zn2+ binding site [ion binding]; other site 583346002272 Mg2+ binding site [ion binding]; other site 583346002273 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 583346002274 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 583346002275 intersubunit interface [polypeptide binding]; other site 583346002276 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 583346002277 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 583346002278 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 583346002279 phosphate binding site [ion binding]; other site 583346002280 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 583346002281 EamA-like transporter family; Region: EamA; pfam00892 583346002282 EamA-like transporter family; Region: EamA; pfam00892 583346002283 Amidinotransferase; Region: Amidinotransf; cl12043 583346002284 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 583346002285 Amidinotransferase; Region: Amidinotransf; pfam02274 583346002286 L-aspartate oxidase; Provisional; Region: PRK06175 583346002287 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 583346002288 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 583346002289 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 583346002290 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 583346002291 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 583346002292 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 583346002293 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 583346002294 Walker A/P-loop; other site 583346002295 ATP binding site [chemical binding]; other site 583346002296 Q-loop/lid; other site 583346002297 ABC transporter signature motif; other site 583346002298 Walker B; other site 583346002299 D-loop; other site 583346002300 H-loop/switch region; other site 583346002301 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 583346002302 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 583346002303 dimer interface [polypeptide binding]; other site 583346002304 conserved gate region; other site 583346002305 putative PBP binding loops; other site 583346002306 ABC-ATPase subunit interface; other site 583346002307 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 583346002308 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 583346002309 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 583346002310 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 583346002311 NAD(P) binding site [chemical binding]; other site 583346002312 active site 583346002313 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 583346002314 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 583346002315 active site 583346002316 phosphorylation site [posttranslational modification] 583346002317 intermolecular recognition site; other site 583346002318 dimerization interface [polypeptide binding]; other site 583346002319 CHAP domain; Region: CHAP; cl17642 583346002320 Bacterial SH3 domain; Region: SH3_3; pfam08239 583346002321 Bacterial SH3 domain; Region: SH3_3; pfam08239 583346002322 Bacterial SH3 domain; Region: SH3_3; pfam08239 583346002323 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 583346002324 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 583346002325 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 583346002326 prephenate dehydrogenase; Validated; Region: PRK08507 583346002327 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 583346002328 active site 583346002329 dimer interface [polypeptide binding]; other site 583346002330 metal binding site [ion binding]; metal-binding site 583346002331 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 583346002332 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 583346002333 hinge; other site 583346002334 active site 583346002335 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 583346002336 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 583346002337 Tetramer interface [polypeptide binding]; other site 583346002338 active site 583346002339 FMN-binding site [chemical binding]; other site 583346002340 Chorismate mutase type II; Region: CM_2; smart00830 583346002341 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 583346002342 Prephenate dehydratase; Region: PDT; pfam00800 583346002343 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 583346002344 putative L-Phe binding site [chemical binding]; other site 583346002345 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 583346002346 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 583346002347 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 583346002348 shikimate binding site; other site 583346002349 NAD(P) binding site [chemical binding]; other site 583346002350 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 583346002351 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 583346002352 ADP binding site [chemical binding]; other site 583346002353 magnesium binding site [ion binding]; other site 583346002354 putative shikimate binding site; other site 583346002355 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 583346002356 Uncharacterized conserved protein [Function unknown]; Region: COG3391 583346002357 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 583346002358 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 583346002359 Uncharacterized family 2; belongs to a superfamily containing transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_2; cd10159 583346002360 putative homodimer interface [polypeptide binding]; other site 583346002361 putative homotetramer interface [polypeptide binding]; other site 583346002362 putative allosteric switch controlling residues; other site 583346002363 putative metal binding site [ion binding]; other site 583346002364 putative homodimer-homodimer interface [polypeptide binding]; other site 583346002365 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 583346002366 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 583346002367 metal-binding site [ion binding] 583346002368 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 583346002369 Soluble P-type ATPase [General function prediction only]; Region: COG4087 583346002370 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 583346002371 metal-binding site [ion binding] 583346002372 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 583346002373 active site 583346002374 substrate binding site [chemical binding]; other site 583346002375 metal binding site [ion binding]; metal-binding site 583346002376 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 583346002377 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 583346002378 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 583346002379 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 583346002380 putative active site [active] 583346002381 catalytic site [active] 583346002382 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 583346002383 putative active site [active] 583346002384 catalytic site [active] 583346002385 HNH nucleases; Region: HNHc; smart00507 583346002386 active site 583346002387 FOG: CBS domain [General function prediction only]; Region: COG0517 583346002388 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_30; cd04643 583346002389 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 583346002390 Predicted membrane protein [Function unknown]; Region: COG4684 583346002391 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 583346002392 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 583346002393 putative active site pocket [active] 583346002394 cleavage site 583346002395 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 583346002396 RNA binding site [nucleotide binding]; other site 583346002397 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 583346002398 RNA binding site [nucleotide binding]; other site 583346002399 S1_RPS1_repeat_hs4: 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_hs4; cd05692 583346002400 RNA binding site [nucleotide binding]; other site 583346002401 Sensory domain found in PocR; Region: PocR; pfam10114 583346002402 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 583346002403 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 583346002404 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 583346002405 metal binding site [ion binding]; metal-binding site 583346002406 active site 583346002407 I-site; other site 583346002408 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 583346002409 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346002410 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346002411 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 583346002412 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 583346002413 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346002414 Walker A/P-loop; other site 583346002415 ATP binding site [chemical binding]; other site 583346002416 Q-loop/lid; other site 583346002417 ABC transporter signature motif; other site 583346002418 Walker B; other site 583346002419 D-loop; other site 583346002420 H-loop/switch region; other site 583346002421 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 583346002422 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 583346002423 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346002424 Walker A/P-loop; other site 583346002425 ATP binding site [chemical binding]; other site 583346002426 Q-loop/lid; other site 583346002427 ABC transporter signature motif; other site 583346002428 Walker B; other site 583346002429 D-loop; other site 583346002430 H-loop/switch region; other site 583346002431 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 583346002432 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 583346002433 NodB motif; other site 583346002434 active site 583346002435 catalytic site [active] 583346002436 Zn binding site [ion binding]; other site 583346002437 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 583346002438 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 583346002439 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 583346002440 catalytic residue [active] 583346002441 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 583346002442 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 583346002443 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 583346002444 Ligand Binding Site [chemical binding]; other site 583346002445 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 583346002446 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 583346002447 Double zinc ribbon; Region: DZR; pfam12773 583346002448 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 583346002449 Domain of unknown function (DUF4317); Region: DUF4317; pfam14199 583346002450 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 583346002451 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 583346002452 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 583346002453 Walker A/P-loop; other site 583346002454 ATP binding site [chemical binding]; other site 583346002455 Q-loop/lid; other site 583346002456 ABC transporter signature motif; other site 583346002457 Walker B; other site 583346002458 D-loop; other site 583346002459 H-loop/switch region; other site 583346002460 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 583346002461 dimer interface [polypeptide binding]; other site 583346002462 conserved gate region; other site 583346002463 ABC-ATPase subunit interface; other site 583346002464 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 583346002465 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 583346002466 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346002467 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346002468 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346002469 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346002470 Uncharacterized small protein (DUF2292); Region: DUF2292; pfam10055 583346002471 FeS assembly ATPase SufC; Region: sufC; TIGR01978 583346002472 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 583346002473 Walker A/P-loop; other site 583346002474 ATP binding site [chemical binding]; other site 583346002475 Q-loop/lid; other site 583346002476 ABC transporter signature motif; other site 583346002477 Walker B; other site 583346002478 D-loop; other site 583346002479 H-loop/switch region; other site 583346002480 FeS assembly protein SufB; Region: sufB; TIGR01980 583346002481 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 583346002482 FeS assembly protein SufD; Region: sufD; TIGR01981 583346002483 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 583346002484 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 583346002485 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 583346002486 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 583346002487 catalytic residue [active] 583346002488 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 583346002489 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 583346002490 trimerization site [polypeptide binding]; other site 583346002491 active site 583346002492 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 583346002493 adenosine deaminase; Provisional; Region: PRK09358 583346002494 active site 583346002495 Transposase; Region: DEDD_Tnp_IS110; pfam01548 583346002496 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 583346002497 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 583346002498 dimer interface [polypeptide binding]; other site 583346002499 [2Fe-2S] cluster binding site [ion binding]; other site 583346002500 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 583346002501 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 583346002502 4Fe-4S binding domain; Region: Fer4; pfam00037 583346002503 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 583346002504 catalytic loop [active] 583346002505 iron binding site [ion binding]; other site 583346002506 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 583346002507 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 583346002508 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 583346002509 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 583346002510 4Fe-4S binding domain; Region: Fer4; pfam00037 583346002511 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 583346002512 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 583346002513 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 583346002514 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 583346002515 Hexamer interface [polypeptide binding]; other site 583346002516 Putative hexagonal pore residue; other site 583346002517 propanediol dehydratase large subunit; Provisional; Region: pduC; PRK15444 583346002518 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 583346002519 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 583346002520 alpha-beta subunit interface [polypeptide binding]; other site 583346002521 alpha-gamma subunit interface [polypeptide binding]; other site 583346002522 active site 583346002523 substrate and K+ binding site; other site 583346002524 K+ binding site [ion binding]; other site 583346002525 cobalamin binding site [chemical binding]; other site 583346002526 propanediol dehydratase small subunit; Provisional; Region: pduE; PRK15443 583346002527 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 583346002528 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 583346002529 Hexamer interface [polypeptide binding]; other site 583346002530 Hexagonal pore residue; other site 583346002531 propanediol utilization phosphotransacylase; Provisional; Region: PRK15070 583346002532 Propanediol utilisation protein PduL; Region: PduL; pfam06130 583346002533 Propanediol utilisation protein PduL; Region: PduL; pfam06130 583346002534 ethanolamine utilization protein EutJ; Provisional; Region: PRK15080 583346002535 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 583346002536 nucleotide binding site [chemical binding]; other site 583346002537 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 583346002538 Flavoprotein; Region: Flavoprotein; cl08021 583346002539 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 583346002540 Hexamer/Pentamer interface [polypeptide binding]; other site 583346002541 central pore; other site 583346002542 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 583346002543 SLBB domain; Region: SLBB; pfam10531 583346002544 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 583346002545 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 583346002546 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 583346002547 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 583346002548 putative hexamer interface [polypeptide binding]; other site 583346002549 putative hexagonal pore; other site 583346002550 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 583346002551 putative hexamer interface [polypeptide binding]; other site 583346002552 putative hexagonal pore; other site 583346002553 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 583346002554 SLBB domain; Region: SLBB; pfam10531 583346002555 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 583346002556 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 583346002557 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 583346002558 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 583346002559 putative hexamer interface [polypeptide binding]; other site 583346002560 putative hexagonal pore; other site 583346002561 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 583346002562 putative hexamer interface [polypeptide binding]; other site 583346002563 putative hexagonal pore; other site 583346002564 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 583346002565 SLBB domain; Region: SLBB; pfam10531 583346002566 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 583346002567 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 583346002568 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 583346002569 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 583346002570 putative hexamer interface [polypeptide binding]; other site 583346002571 putative hexagonal pore; other site 583346002572 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 583346002573 putative hexamer interface [polypeptide binding]; other site 583346002574 putative hexagonal pore; other site 583346002575 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 583346002576 SLBB domain; Region: SLBB; pfam10531 583346002577 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 583346002578 RnfC Barrel sandwich hybrid domain; Region: RnfC_N; pfam13375 583346002579 PduT-like ethanolamine utilization protein; Region: eut_PduT; TIGR02526 583346002580 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduT_repeat1; cd07053 583346002581 putative hexamer interface [polypeptide binding]; other site 583346002582 putative hexagonal pore; other site 583346002583 1,2-propanediol utilization protein T (PduT), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduT_repeat2; cd07054 583346002584 putative hexamer interface [polypeptide binding]; other site 583346002585 putative hexagonal pore; other site 583346002586 hypothetical protein; Provisional; Region: PRK04435 583346002587 C-terminal ACT domain of a small (; 147 a.a.) putative phenylalanine biosynthetic pathway protein described in Bacillus subtilis (BS) PheB (PheB-BS) and related domains; Region: ACT_PheB-BS; cd04888 583346002588 homoserine dehydrogenase; Provisional; Region: PRK06349 583346002589 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 583346002590 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 583346002591 homoserine kinase; Provisional; Region: PRK01212 583346002592 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 583346002593 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 583346002594 Domain of unknown function (DUF4321); Region: DUF4321; pfam14209 583346002595 Maf-like protein; Reviewed; Region: PRK00078 583346002596 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 583346002597 dimer interface [polypeptide binding]; other site 583346002598 active site 583346002599 hypothetical protein; Reviewed; Region: PRK00024 583346002600 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 583346002601 helix-hairpin-helix signature motif; other site 583346002602 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 583346002603 MPN+ (JAMM) motif; other site 583346002604 Zinc-binding site [ion binding]; other site 583346002605 rod shape-determining protein MreB; Provisional; Region: PRK13927 583346002606 MreB and similar proteins; Region: MreB_like; cd10225 583346002607 nucleotide binding site [chemical binding]; other site 583346002608 Mg binding site [ion binding]; other site 583346002609 putative protofilament interaction site [polypeptide binding]; other site 583346002610 RodZ interaction site [polypeptide binding]; other site 583346002611 rod shape-determining protein MreC; Provisional; Region: PRK13922 583346002612 rod shape-determining protein MreC; Region: MreC; pfam04085 583346002613 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 583346002614 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 583346002615 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 583346002616 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 583346002617 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 583346002618 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 583346002619 septum formation inhibitor; Reviewed; Region: minC; PRK00513 583346002620 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 583346002621 septum site-determining protein MinD; Region: minD_bact; TIGR01968 583346002622 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 583346002623 Switch I; other site 583346002624 Switch II; other site 583346002625 Septum formation topological specificity factor MinE; Region: MinE; cl00538 583346002626 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 583346002627 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. SpoIVFB (sporulation protein, stage IV cell wall formation, F...; Region: S2P-M50_SpoIVFB; cd06161 583346002628 Peptidase family M50; Region: Peptidase_M50; pfam02163 583346002629 active site 583346002630 putative substrate binding region [chemical binding]; other site 583346002631 radical SAM family uncharacterized protein; Region: rSAM_fuse_unch; TIGR03960 583346002632 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 583346002633 FeS/SAM binding site; other site 583346002634 radical SAM-linked protein; Region: sam_1_link_chp; TIGR03936 583346002635 Uncharacterized protein conserved in bacteria (DUF2344); Region: DUF2344; pfam10105 583346002636 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 583346002637 homodimer interface [polypeptide binding]; other site 583346002638 oligonucleotide binding site [chemical binding]; other site 583346002639 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 583346002640 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 583346002641 hypothetical protein; Provisional; Region: PRK14553 583346002642 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 583346002643 GTPase CgtA; Reviewed; Region: obgE; PRK12297 583346002644 GTP1/OBG; Region: GTP1_OBG; pfam01018 583346002645 Obg GTPase; Region: Obg; cd01898 583346002646 G1 box; other site 583346002647 GTP/Mg2+ binding site [chemical binding]; other site 583346002648 Switch I region; other site 583346002649 G2 box; other site 583346002650 G3 box; other site 583346002651 Switch II region; other site 583346002652 G4 box; other site 583346002653 G5 box; other site 583346002654 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 583346002655 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 583346002656 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 583346002657 active site 583346002658 (T/H)XGH motif; other site 583346002659 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 583346002660 Zn2+ binding site [ion binding]; other site 583346002661 Mg2+ binding site [ion binding]; other site 583346002662 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 583346002663 homotrimer interaction site [polypeptide binding]; other site 583346002664 putative active site [active] 583346002665 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 583346002666 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 583346002667 active site 583346002668 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 583346002669 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 583346002670 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 583346002671 SLBB domain; Region: SLBB; pfam10531 583346002672 comEA protein; Region: comE; TIGR01259 583346002673 Helix-hairpin-helix motif; Region: HHH; pfam00633 583346002674 aspartate aminotransferase; Provisional; Region: PRK06836 583346002675 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 583346002676 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346002677 homodimer interface [polypeptide binding]; other site 583346002678 catalytic residue [active] 583346002679 Predicted permeases [General function prediction only]; Region: COG0679 583346002680 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 583346002681 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 583346002682 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 583346002683 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 583346002684 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 583346002685 Competence protein; Region: Competence; pfam03772 583346002686 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 583346002687 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 583346002688 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 583346002689 germination protease; Provisional; Region: PRK12362 583346002690 Stage II sporulation protein P (SpoIIP); Region: SpoIIP; pfam07454 583346002691 stage II sporulation protein P; Region: spore_II_P; TIGR02867 583346002692 GTP-binding protein LepA; Provisional; Region: PRK05433 583346002693 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 583346002694 G1 box; other site 583346002695 putative GEF interaction site [polypeptide binding]; other site 583346002696 GTP/Mg2+ binding site [chemical binding]; other site 583346002697 Switch I region; other site 583346002698 G2 box; other site 583346002699 G3 box; other site 583346002700 Switch II region; other site 583346002701 G4 box; other site 583346002702 G5 box; other site 583346002703 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 583346002704 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 583346002705 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 583346002706 coproporphyrinogen III oxidase; Provisional; Region: PRK05799 583346002707 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 583346002708 FeS/SAM binding site; other site 583346002709 HemN C-terminal domain; Region: HemN_C; pfam06969 583346002710 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 583346002711 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 583346002712 GrpE; Region: GrpE; pfam01025 583346002713 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 583346002714 dimer interface [polypeptide binding]; other site 583346002715 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 583346002716 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 583346002717 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 583346002718 nucleotide binding site [chemical binding]; other site 583346002719 NEF interaction site [polypeptide binding]; other site 583346002720 SBD interface [polypeptide binding]; other site 583346002721 chaperone protein DnaJ; Provisional; Region: PRK14297 583346002722 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 583346002723 HSP70 interaction site [polypeptide binding]; other site 583346002724 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 583346002725 substrate binding site [polypeptide binding]; other site 583346002726 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 583346002727 Zn binding sites [ion binding]; other site 583346002728 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 583346002729 dimer interface [polypeptide binding]; other site 583346002730 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 583346002731 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 583346002732 S-adenosylmethionine binding site [chemical binding]; other site 583346002733 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 583346002734 RNA methyltransferase, RsmE family; Region: TIGR00046 583346002735 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 583346002736 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 583346002737 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 583346002738 nucleotide binding site/active site [active] 583346002739 HIT family signature motif; other site 583346002740 catalytic residue [active] 583346002741 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 583346002742 Yqey-like protein; Region: YqeY; cl17540 583346002743 sporulation protein YqfC; Region: spore_yqfC; TIGR02856 583346002744 Putative stage IV sporulation protein YqfD; Region: YqfD; pfam06898 583346002745 sporulation protein YqfD; Region: spore_yqfD; TIGR02876 583346002746 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]; Region: COG1480 583346002747 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 583346002748 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 583346002749 Zn2+ binding site [ion binding]; other site 583346002750 Mg2+ binding site [ion binding]; other site 583346002751 metal-binding heat shock protein; Provisional; Region: PRK00016 583346002752 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 583346002753 PAP2_like proteins, diacylglycerol_kinase like sub-family. In some prokaryotes, PAP2_like phosphatase domains appear fused to E. coli DAGK-like trans-membrane diacylglycerol kinase domains. The cellular function of these architectures remains to be...; Region: PAP2_diacylglycerolkinase; cd03383 583346002754 active site 583346002755 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 583346002756 active site 583346002757 catalytic motif [active] 583346002758 Zn binding site [ion binding]; other site 583346002759 GTPase Era; Reviewed; Region: era; PRK00089 583346002760 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 583346002761 G1 box; other site 583346002762 GTP/Mg2+ binding site [chemical binding]; other site 583346002763 Switch I region; other site 583346002764 G2 box; other site 583346002765 Switch II region; other site 583346002766 G3 box; other site 583346002767 G4 box; other site 583346002768 G5 box; other site 583346002769 KH domain; Region: KH_2; pfam07650 583346002770 Recombination protein O N terminal; Region: RecO_N; pfam11967 583346002771 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 583346002772 Recombination protein O C terminal; Region: RecO_C; pfam02565 583346002773 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 583346002774 HTH domain; Region: HTH_11; pfam08279 583346002775 FOG: CBS domain [General function prediction only]; Region: COG0517 583346002776 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_4; cd04617 583346002777 pyruvate phosphate dikinase; Provisional; Region: PRK09279 583346002778 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 583346002779 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 583346002780 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 583346002781 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 583346002782 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_11; cd12175 583346002783 putative ligand binding site [chemical binding]; other site 583346002784 putative NAD binding site [chemical binding]; other site 583346002785 catalytic site [active] 583346002786 Transcriptional regulator [Transcription]; Region: LysR; COG0583 583346002787 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 583346002788 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 583346002789 dimerization interface [polypeptide binding]; other site 583346002790 gamma-glutamyl kinase; Provisional; Region: PRK05429 583346002791 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 583346002792 nucleotide binding site [chemical binding]; other site 583346002793 homotetrameric interface [polypeptide binding]; other site 583346002794 putative phosphate binding site [ion binding]; other site 583346002795 putative allosteric binding site; other site 583346002796 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 583346002797 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 583346002798 active site 583346002799 FMN binding site [chemical binding]; other site 583346002800 substrate binding site [chemical binding]; other site 583346002801 putative catalytic residue [active] 583346002802 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 583346002803 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 583346002804 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 583346002805 B3/4 domain; Region: B3_4; pfam03483 583346002806 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 583346002807 EamA-like transporter family; Region: EamA; pfam00892 583346002808 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 583346002809 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 583346002810 Transposase; Region: HTH_Tnp_1; cl17663 583346002811 Predicted ATPase [General function prediction only]; Region: COG3910 583346002812 ATP-binding cassette domain of non-transporter proteins; Region: ABC_Class2; cd03227 583346002813 Walker A/P-loop; other site 583346002814 ATP binding site [chemical binding]; other site 583346002815 Q-loop/lid; other site 583346002816 ABC transporter signature motif; other site 583346002817 Walker B; other site 583346002818 D-loop; other site 583346002819 H-loop/switch region; other site 583346002820 Methyltransferase domain; Region: Methyltransf_31; pfam13847 583346002821 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 583346002822 S-adenosylmethionine binding site [chemical binding]; other site 583346002823 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 583346002824 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 583346002825 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 583346002826 Nitrite and sulphite reductase 4Fe-4S domain; Region: NIR_SIR; pfam01077 583346002827 4Fe-4S binding domain; Region: Fer4; pfam00037 583346002828 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 583346002829 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 583346002830 ligand binding site [chemical binding]; other site 583346002831 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 583346002832 non-specific DNA interactions [nucleotide binding]; other site 583346002833 DNA binding site [nucleotide binding] 583346002834 sequence specific DNA binding site [nucleotide binding]; other site 583346002835 putative cAMP binding site [chemical binding]; other site 583346002836 hybrid cluster protein; Provisional; Region: PRK05290 583346002837 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 583346002838 ACS interaction site; other site 583346002839 CODH interaction site; other site 583346002840 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 583346002841 hybrid metal cluster; other site 583346002842 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 583346002843 AAA domain; Region: AAA_26; pfam13500 583346002844 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 583346002845 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 583346002846 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 583346002847 inhibitor-cofactor binding pocket; inhibition site 583346002848 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346002849 catalytic residue [active] 583346002850 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 583346002851 spore coat protein YsxE; Region: spore_ysxE; TIGR02904 583346002852 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 583346002853 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 583346002854 Zn2+ binding site [ion binding]; other site 583346002855 Mg2+ binding site [ion binding]; other site 583346002856 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 583346002857 DNA primase; Validated; Region: dnaG; PRK05667 583346002858 CHC2 zinc finger; Region: zf-CHC2; pfam01807 583346002859 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 583346002860 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 583346002861 active site 583346002862 metal binding site [ion binding]; metal-binding site 583346002863 interdomain interaction site; other site 583346002864 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 583346002865 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 583346002866 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 583346002867 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 583346002868 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 583346002869 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 583346002870 DNA binding residues [nucleotide binding] 583346002871 Protein of unknown function (DUF2679); Region: DUF2679; pfam10882 583346002872 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 583346002873 Family of unknown function (DUF633); Region: DUF633; pfam04816 583346002874 Uncharacterized conserved protein [Function unknown]; Region: COG0327 583346002875 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 583346002876 Putative zinc ribbon domain; Region: DUF164; pfam02591 583346002877 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 583346002878 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 583346002879 G1 box; other site 583346002880 GTP/Mg2+ binding site [chemical binding]; other site 583346002881 Switch I region; other site 583346002882 G2 box; other site 583346002883 G3 box; other site 583346002884 Switch II region; other site 583346002885 G4 box; other site 583346002886 G5 box; other site 583346002887 Nucleoside recognition; Region: Gate; pfam07670 583346002888 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 583346002889 Nucleoside recognition; Region: Gate; pfam07670 583346002890 FeoA domain; Region: FeoA; pfam04023 583346002891 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 583346002892 dihydropteroate synthase; Region: DHPS; TIGR01496 583346002893 substrate binding pocket [chemical binding]; other site 583346002894 dimer interface [polypeptide binding]; other site 583346002895 inhibitor binding site; inhibition site 583346002896 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 583346002897 homodecamer interface [polypeptide binding]; other site 583346002898 GTP cyclohydrolase I; Provisional; Region: PLN03044 583346002899 active site 583346002900 putative catalytic site residues [active] 583346002901 zinc binding site [ion binding]; other site 583346002902 GTP-CH-I/GFRP interaction surface; other site 583346002903 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 583346002904 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 583346002905 homooctamer interface [polypeptide binding]; other site 583346002906 active site 583346002907 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 583346002908 catalytic center binding site [active] 583346002909 ATP binding site [chemical binding]; other site 583346002910 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 583346002911 Active site serine [active] 583346002912 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 583346002913 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 583346002914 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 583346002915 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 583346002916 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 583346002917 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 583346002918 Walker A/P-loop; other site 583346002919 ATP binding site [chemical binding]; other site 583346002920 Q-loop/lid; other site 583346002921 ABC transporter signature motif; other site 583346002922 Walker B; other site 583346002923 D-loop; other site 583346002924 H-loop/switch region; other site 583346002925 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346002926 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 583346002927 dimer interface [polypeptide binding]; other site 583346002928 phosphorylation site [posttranslational modification] 583346002929 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 583346002930 ATP binding site [chemical binding]; other site 583346002931 G-X-G motif; other site 583346002932 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346002933 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 583346002934 active site 583346002935 phosphorylation site [posttranslational modification] 583346002936 intermolecular recognition site; other site 583346002937 dimerization interface [polypeptide binding]; other site 583346002938 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 583346002939 DNA binding site [nucleotide binding] 583346002940 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 583346002941 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 583346002942 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 583346002943 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 583346002944 putative acyl-acceptor binding pocket; other site 583346002945 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 583346002946 Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_Re_CS; cd07947 583346002947 active site 583346002948 catalytic residues [active] 583346002949 metal binding site [ion binding]; metal-binding site 583346002950 aconitate hydratase; Validated; Region: PRK07229 583346002951 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Bact; cd01585 583346002952 substrate binding site [chemical binding]; other site 583346002953 ligand binding site [chemical binding]; other site 583346002954 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 583346002955 substrate binding site [chemical binding]; other site 583346002956 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 583346002957 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 583346002958 homodimer interface [polypeptide binding]; other site 583346002959 substrate-cofactor binding pocket; other site 583346002960 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346002961 catalytic residue [active] 583346002962 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 583346002963 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 583346002964 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 583346002965 substrate binding pocket [chemical binding]; other site 583346002966 dimer interface [polypeptide binding]; other site 583346002967 inhibitor binding site; inhibition site 583346002968 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 583346002969 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 583346002970 B12 binding site [chemical binding]; other site 583346002971 cobalt ligand [ion binding]; other site 583346002972 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 583346002973 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 583346002974 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 583346002975 substrate binding pocket [chemical binding]; other site 583346002976 membrane-bound complex binding site; other site 583346002977 hinge residues; other site 583346002978 amine acid ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family; Region: HEQRo_perm_3TM; TIGR01726 583346002979 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 583346002980 putative PBP binding loops; other site 583346002981 dimer interface [polypeptide binding]; other site 583346002982 ABC-ATPase subunit interface; other site 583346002983 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 583346002984 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 583346002985 Walker A/P-loop; other site 583346002986 ATP binding site [chemical binding]; other site 583346002987 Q-loop/lid; other site 583346002988 ABC transporter signature motif; other site 583346002989 Walker B; other site 583346002990 D-loop; other site 583346002991 H-loop/switch region; other site 583346002992 argininosuccinate synthase; Provisional; Region: PRK13820 583346002993 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 583346002994 ANP binding site [chemical binding]; other site 583346002995 Substrate Binding Site II [chemical binding]; other site 583346002996 Substrate Binding Site I [chemical binding]; other site 583346002997 argininosuccinate lyase; Provisional; Region: PRK00855 583346002998 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 583346002999 active sites [active] 583346003000 tetramer interface [polypeptide binding]; other site 583346003001 Uncharacterized conserved protein [Function unknown]; Region: COG2155 583346003002 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 583346003003 AsnC family; Region: AsnC_trans_reg; pfam01037 583346003004 asparagine synthetase A; Reviewed; Region: PRK06462 583346003005 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 583346003006 motif 1; other site 583346003007 dimer interface [polypeptide binding]; other site 583346003008 active site 583346003009 motif 2; other site 583346003010 motif 3; other site 583346003011 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 583346003012 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 583346003013 trimer interface [polypeptide binding]; other site 583346003014 putative metal binding site [ion binding]; other site 583346003015 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 583346003016 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 583346003017 Peptidase M14 carboxypeptidase family-like domain of Endopeptidase I; Region: M14_Endopeptidase_I; cd06229 583346003018 putative active site [active] 583346003019 Zn binding site [ion binding]; other site 583346003020 Protein of unknown function (DUF327); Region: DUF327; pfam03885 583346003021 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 583346003022 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 583346003023 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 583346003024 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 583346003025 Soluble P-type ATPase [General function prediction only]; Region: COG4087 583346003026 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 583346003027 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 583346003028 S1 domain; Region: S1_2; pfam13509 583346003029 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 583346003030 RNA binding site [nucleotide binding]; other site 583346003031 NAD synthetase; Reviewed; Region: nadE; PRK02628 583346003032 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 583346003033 multimer interface [polypeptide binding]; other site 583346003034 active site 583346003035 catalytic triad [active] 583346003036 protein interface 1 [polypeptide binding]; other site 583346003037 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 583346003038 homodimer interface [polypeptide binding]; other site 583346003039 NAD binding pocket [chemical binding]; other site 583346003040 ATP binding pocket [chemical binding]; other site 583346003041 Mg binding site [ion binding]; other site 583346003042 active-site loop [active] 583346003043 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 583346003044 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 583346003045 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 583346003046 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 583346003047 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 583346003048 active site 583346003049 Substrate binding site; other site 583346003050 Mg++ binding site; other site 583346003051 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 583346003052 putative trimer interface [polypeptide binding]; other site 583346003053 putative CoA binding site [chemical binding]; other site 583346003054 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 583346003055 GTP-mannose-1-phosphate guanyltransferase (MPG1 transferase), also known as GDP-mannose pyrophosphorylase, is a bifunctional enzyme with both phosphomannose isomerase (PMI) activity and GDP-mannose phosphorylase (GMP) activity. The protein contains an...; Region: MPG1_transferase; cd05805 583346003056 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 583346003057 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 583346003058 stationary phase survival protein SurE; Provisional; Region: PRK13933 583346003059 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 583346003060 active site 583346003061 intersubunit interactions; other site 583346003062 catalytic residue [active] 583346003063 Domain of unknown function (DUF4367); Region: DUF4367; pfam14285 583346003064 RNA polymerase sigma factor; Provisional; Region: PRK11924 583346003065 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 583346003066 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 583346003067 DNA binding residues [nucleotide binding] 583346003068 Methyltransferase domain; Region: Methyltransf_23; pfam13489 583346003069 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 583346003070 S-adenosylmethionine binding site [chemical binding]; other site 583346003071 cystathionine beta-lyase; Provisional; Region: PRK07671 583346003072 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 583346003073 homodimer interface [polypeptide binding]; other site 583346003074 substrate-cofactor binding pocket; other site 583346003075 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346003076 catalytic residue [active] 583346003077 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 583346003078 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 583346003079 dimer interface [polypeptide binding]; other site 583346003080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346003081 catalytic residue [active] 583346003082 Predicted glycosyl hydrolase [General function prediction only]; Region: COG3858 583346003083 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 583346003084 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 583346003085 Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the...; Region: GH18_CFLE_spore_hydrolase; cd02874 583346003086 active site 583346003087 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 583346003088 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 583346003089 Ligand binding site; other site 583346003090 metal-binding site 583346003091 Transcriptional regulator [Transcription]; Region: LysR; COG0583 583346003092 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 583346003093 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 583346003094 putative dimerization interface [polypeptide binding]; other site 583346003095 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 583346003096 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 583346003097 active site 583346003098 catalytic residue [active] 583346003099 dimer interface [polypeptide binding]; other site 583346003100 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 583346003101 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 583346003102 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 583346003103 shikimate binding site; other site 583346003104 NAD(P) binding site [chemical binding]; other site 583346003105 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 583346003106 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 583346003107 active site 583346003108 FMN binding site [chemical binding]; other site 583346003109 substrate binding site [chemical binding]; other site 583346003110 putative catalytic residue [active] 583346003111 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 583346003112 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 583346003113 D-glucuronyl C5-epimerase C-terminus; Region: C5-epim_C; pfam06662 583346003114 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 583346003115 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 583346003116 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 583346003117 D-galactonate transporter; Region: 2A0114; TIGR00893 583346003118 putative substrate translocation pore; other site 583346003119 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 583346003120 Major Facilitator Superfamily; Region: MFS_1; pfam07690 583346003121 putative substrate translocation pore; other site 583346003122 shikimate 5-dehydrogenase; Provisional; Region: PRK12548 583346003123 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 583346003124 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 583346003125 shikimate binding site; other site 583346003126 NAD(P) binding site [chemical binding]; other site 583346003127 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 583346003128 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 583346003129 active site 583346003130 FMN binding site [chemical binding]; other site 583346003131 substrate binding site [chemical binding]; other site 583346003132 putative catalytic residue [active] 583346003133 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 583346003134 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 583346003135 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 583346003136 Transcriptional regulator [Transcription]; Region: LysR; COG0583 583346003137 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 583346003138 The substrate binding domain of LysR-type transcriptional regulator GltC, which activates gltA expression of glutamate synthase operon, contains type 2 periplasmic binding fold; Region: PBP2_GltC_like; cd08434 583346003139 putative dimerization interface [polypeptide binding]; other site 583346003140 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 583346003141 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 583346003142 inhibitor-cofactor binding pocket; inhibition site 583346003143 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346003144 catalytic residue [active] 583346003145 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 583346003146 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 583346003147 inhibitor-cofactor binding pocket; inhibition site 583346003148 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346003149 catalytic residue [active] 583346003150 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 583346003151 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 583346003152 DNA binding residues [nucleotide binding] 583346003153 dimer interface [polypeptide binding]; other site 583346003154 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 583346003155 S-adenosylmethionine binding site [chemical binding]; other site 583346003156 Helix-turn-helix domain; Region: HTH_38; pfam13936 583346003157 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 583346003158 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 583346003159 active site 583346003160 HIGH motif; other site 583346003161 nucleotide binding site [chemical binding]; other site 583346003162 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 583346003163 KMSKS motif; other site 583346003164 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 583346003165 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 583346003166 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 583346003167 NodB motif; other site 583346003168 active site 583346003169 catalytic site [active] 583346003170 Zn binding site [ion binding]; other site 583346003171 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 583346003172 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 583346003173 active site 583346003174 dimer interface [polypeptide binding]; other site 583346003175 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 583346003176 Ligand Binding Site [chemical binding]; other site 583346003177 Molecular Tunnel; other site 583346003178 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 583346003179 dimer interface [polypeptide binding]; other site 583346003180 FMN binding site [chemical binding]; other site 583346003181 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 583346003182 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 583346003183 Walker A motif; other site 583346003184 ATP binding site [chemical binding]; other site 583346003185 Walker B motif; other site 583346003186 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 583346003187 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 583346003188 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 583346003189 Uncharacterized BCR, COG1636; Region: DUF208; pfam02677 583346003190 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 583346003191 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 583346003192 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346003193 homodimer interface [polypeptide binding]; other site 583346003194 catalytic residue [active] 583346003195 L-asparaginase II; Region: Asparaginase_II; pfam06089 583346003196 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 583346003197 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 583346003198 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 583346003199 Walker A/P-loop; other site 583346003200 ATP binding site [chemical binding]; other site 583346003201 Q-loop/lid; other site 583346003202 ABC transporter signature motif; other site 583346003203 Walker B; other site 583346003204 D-loop; other site 583346003205 H-loop/switch region; other site 583346003206 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 583346003207 nitrogenase iron protein; Region: nifH; TIGR01287 583346003208 Nucleotide-binding sites [chemical binding]; other site 583346003209 Walker A motif; other site 583346003210 Switch I region of nucleotide binding site; other site 583346003211 Fe4S4 binding sites [ion binding]; other site 583346003212 Switch II region of nucleotide binding site; other site 583346003213 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346003214 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346003215 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346003216 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346003217 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 583346003218 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 583346003219 FeS/SAM binding site; other site 583346003220 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 583346003221 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 583346003222 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 583346003223 dimer interface [polypeptide binding]; other site 583346003224 conserved gate region; other site 583346003225 putative PBP binding loops; other site 583346003226 ABC-ATPase subunit interface; other site 583346003227 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 583346003228 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 583346003229 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 583346003230 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 583346003231 Walker A/P-loop; other site 583346003232 ATP binding site [chemical binding]; other site 583346003233 Q-loop/lid; other site 583346003234 ABC transporter signature motif; other site 583346003235 Walker B; other site 583346003236 D-loop; other site 583346003237 H-loop/switch region; other site 583346003238 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 583346003239 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 583346003240 dimer interface [polypeptide binding]; other site 583346003241 conserved gate region; other site 583346003242 putative PBP binding loops; other site 583346003243 ABC-ATPase subunit interface; other site 583346003244 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 583346003245 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 583346003246 putative PBP binding loops; other site 583346003247 dimer interface [polypeptide binding]; other site 583346003248 ABC-ATPase subunit interface; other site 583346003249 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346003250 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346003251 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346003252 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346003253 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346003254 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346003255 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 583346003256 nitrogenase iron protein; Region: nifH; TIGR01287 583346003257 Nucleotide-binding sites [chemical binding]; other site 583346003258 Walker A motif; other site 583346003259 Switch I region of nucleotide binding site; other site 583346003260 Fe4S4 binding sites [ion binding]; other site 583346003261 Switch II region of nucleotide binding site; other site 583346003262 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346003263 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346003264 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346003265 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346003266 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346003267 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 583346003268 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 583346003269 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 583346003270 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 583346003271 dimer interface [polypeptide binding]; other site 583346003272 conserved gate region; other site 583346003273 putative PBP binding loops; other site 583346003274 ABC-ATPase subunit interface; other site 583346003275 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 583346003276 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 583346003277 dimer interface [polypeptide binding]; other site 583346003278 conserved gate region; other site 583346003279 putative PBP binding loops; other site 583346003280 ABC-ATPase subunit interface; other site 583346003281 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 583346003282 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 583346003283 Walker A/P-loop; other site 583346003284 ATP binding site [chemical binding]; other site 583346003285 Q-loop/lid; other site 583346003286 ABC transporter signature motif; other site 583346003287 Walker B; other site 583346003288 D-loop; other site 583346003289 H-loop/switch region; other site 583346003290 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 583346003291 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 583346003292 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 583346003293 Walker A/P-loop; other site 583346003294 ATP binding site [chemical binding]; other site 583346003295 Q-loop/lid; other site 583346003296 ABC transporter signature motif; other site 583346003297 Walker B; other site 583346003298 D-loop; other site 583346003299 H-loop/switch region; other site 583346003300 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 583346003301 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 583346003302 S-adenosylmethionine binding site [chemical binding]; other site 583346003303 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346003304 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 583346003305 active site 583346003306 phosphorylation site [posttranslational modification] 583346003307 intermolecular recognition site; other site 583346003308 dimerization interface [polypeptide binding]; other site 583346003309 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 583346003310 DNA binding site [nucleotide binding] 583346003311 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 583346003312 dimer interface [polypeptide binding]; other site 583346003313 phosphorylation site [posttranslational modification] 583346003314 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 583346003315 ATP binding site [chemical binding]; other site 583346003316 G-X-G motif; other site 583346003317 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346003318 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346003319 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346003320 Family description; Region: DsbD_2; pfam13386 583346003321 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346003322 dimer interface [polypeptide binding]; other site 583346003323 putative CheW interface [polypeptide binding]; other site 583346003324 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 583346003325 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 583346003326 active site 583346003327 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 583346003328 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 583346003329 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 583346003330 Spore germination protein; Region: Spore_permease; pfam03845 583346003331 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 583346003332 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 583346003333 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 583346003334 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 583346003335 dimer interface [polypeptide binding]; other site 583346003336 active site 583346003337 metal binding site [ion binding]; metal-binding site 583346003338 DNA topoisomerase III; Provisional; Region: PRK07726 583346003339 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 583346003340 active site 583346003341 putative interdomain interaction site [polypeptide binding]; other site 583346003342 putative metal-binding site [ion binding]; other site 583346003343 putative nucleotide binding site [chemical binding]; other site 583346003344 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 583346003345 domain I; other site 583346003346 DNA binding groove [nucleotide binding] 583346003347 phosphate binding site [ion binding]; other site 583346003348 domain II; other site 583346003349 domain III; other site 583346003350 nucleotide binding site [chemical binding]; other site 583346003351 catalytic site [active] 583346003352 domain IV; other site 583346003353 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 583346003354 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 583346003355 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 583346003356 dimer interface [polypeptide binding]; other site 583346003357 active site 583346003358 metal binding site [ion binding]; metal-binding site 583346003359 Response regulator receiver domain; Region: Response_reg; pfam00072 583346003360 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 583346003361 active site 583346003362 phosphorylation site [posttranslational modification] 583346003363 intermolecular recognition site; other site 583346003364 dimerization interface [polypeptide binding]; other site 583346003365 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 583346003366 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 583346003367 Sensory domain found in PocR; Region: PocR; pfam10114 583346003368 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 583346003369 Histidine kinase; Region: His_kinase; pfam06580 583346003370 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 583346003371 ATP binding site [chemical binding]; other site 583346003372 Mg2+ binding site [ion binding]; other site 583346003373 G-X-G motif; other site 583346003374 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 583346003375 1,2-propanediol utilization protein A (PduA), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduA; cd07059 583346003376 Hexamer interface [polypeptide binding]; other site 583346003377 Putative hexagonal pore residue; other site 583346003378 propanediol utilization protein PduB; Provisional; Region: PRK15415 583346003379 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]; Region: BDP1; COG5118 583346003380 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 1; Region: BMC_PduB_repeat1; cd07047 583346003381 putative hexamer interface [polypeptide binding]; other site 583346003382 putative hexagonal pore; other site 583346003383 1,2-propanediol utilization protein B (PduB), Bacterial Micro-Compartment (BMC) domain repeat 2; Region: BMC_PduB_repeat2; cd07048 583346003384 putative hexamer interface [polypeptide binding]; other site 583346003385 putative hexagonal pore; other site 583346003386 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 583346003387 putative catalytic cysteine [active] 583346003388 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 583346003389 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 583346003390 putative active site [active] 583346003391 metal binding site [ion binding]; metal-binding site 583346003392 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 583346003393 putative catalytic cysteine [active] 583346003394 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 583346003395 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 583346003396 putative active site [active] 583346003397 metal binding site [ion binding]; metal-binding site 583346003398 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 583346003399 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism; Region: PDD; cd08180 583346003400 putative active site [active] 583346003401 metal binding site [ion binding]; metal-binding site 583346003402 amino acid transporter; Region: 2A0306; TIGR00909 583346003403 Transmembrane amino acid transporter protein; Region: Aa_trans; cl17468 583346003404 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 583346003405 ketol-acid reductoisomerase; Provisional; Region: PRK05479 583346003406 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 583346003407 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 583346003408 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 583346003409 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 583346003410 PYR/PP interface [polypeptide binding]; other site 583346003411 dimer interface [polypeptide binding]; other site 583346003412 TPP binding site [chemical binding]; other site 583346003413 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 583346003414 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 583346003415 TPP-binding site [chemical binding]; other site 583346003416 dimer interface [polypeptide binding]; other site 583346003417 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 583346003418 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 583346003419 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 583346003420 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346003421 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346003422 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346003423 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 583346003424 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 583346003425 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 583346003426 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 583346003427 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 583346003428 catalytic residue [active] 583346003429 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 583346003430 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 583346003431 ketol-acid reductoisomerase; Provisional; Region: PRK05479 583346003432 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 583346003433 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 583346003434 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 583346003435 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 583346003436 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 583346003437 metal ion-dependent adhesion site (MIDAS); other site 583346003438 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 583346003439 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 583346003440 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 583346003441 HlyD family secretion protein; Region: HlyD_3; pfam13437 583346003442 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 583346003443 Protein export membrane protein; Region: SecD_SecF; cl14618 583346003444 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 583346003445 MarR family; Region: MarR; pfam01047 583346003446 D-glucuronyl C5-epimerase C-terminus; Region: C5-epim_C; pfam06662 583346003447 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 583346003448 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 583346003449 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 583346003450 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346003451 dimer interface [polypeptide binding]; other site 583346003452 putative CheW interface [polypeptide binding]; other site 583346003453 Cache domain; Region: Cache_1; pfam02743 583346003454 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 583346003455 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 583346003456 putative metal binding site; other site 583346003457 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 583346003458 binding surface 583346003459 TPR motif; other site 583346003460 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346003461 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346003462 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346003463 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 583346003464 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 583346003465 Leucine rich repeat; Region: LRR_8; pfam13855 583346003466 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 583346003467 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346003468 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346003469 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346003470 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 583346003471 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 583346003472 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 583346003473 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 583346003474 Bacterial Ig-like domain; Region: Big_5; pfam13205 583346003475 homoserine dehydrogenase; Provisional; Region: PRK06349 583346003476 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 583346003477 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 583346003478 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 583346003479 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 583346003480 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 583346003481 FeS/SAM binding site; other site 583346003482 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 583346003483 Pyruvate formate lyase 1; Region: PFL1; cd01678 583346003484 coenzyme A binding site [chemical binding]; other site 583346003485 active site 583346003486 catalytic residues [active] 583346003487 glycine loop; other site 583346003488 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 583346003489 PAS domain; Region: PAS_9; pfam13426 583346003490 putative active site [active] 583346003491 heme pocket [chemical binding]; other site 583346003492 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 583346003493 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 583346003494 putative active site [active] 583346003495 heme pocket [chemical binding]; other site 583346003496 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 583346003497 dimer interface [polypeptide binding]; other site 583346003498 phosphorylation site [posttranslational modification] 583346003499 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 583346003500 ATP binding site [chemical binding]; other site 583346003501 Mg2+ binding site [ion binding]; other site 583346003502 G-X-G motif; other site 583346003503 Response regulator receiver domain; Region: Response_reg; pfam00072 583346003504 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 583346003505 active site 583346003506 phosphorylation site [posttranslational modification] 583346003507 intermolecular recognition site; other site 583346003508 dimerization interface [polypeptide binding]; other site 583346003509 PAS fold; Region: PAS_3; pfam08447 583346003510 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 583346003511 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 583346003512 metal binding site [ion binding]; metal-binding site 583346003513 active site 583346003514 I-site; other site 583346003515 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 583346003516 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 583346003517 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 583346003518 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 583346003519 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 583346003520 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 583346003521 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 583346003522 Walker A motif; other site 583346003523 ATP binding site [chemical binding]; other site 583346003524 Walker B motif; other site 583346003525 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 583346003526 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 583346003527 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 583346003528 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 583346003529 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 583346003530 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 583346003531 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 583346003532 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 583346003533 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 583346003534 FeS/SAM binding site; other site 583346003535 Response regulator receiver domain; Region: Response_reg; pfam00072 583346003536 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 583346003537 active site 583346003538 phosphorylation site [posttranslational modification] 583346003539 intermolecular recognition site; other site 583346003540 dimerization interface [polypeptide binding]; other site 583346003541 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 583346003542 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 583346003543 putative binding surface; other site 583346003544 active site 583346003545 P2 response regulator binding domain; Region: P2; pfam07194 583346003546 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 583346003547 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 583346003548 ATP binding site [chemical binding]; other site 583346003549 Mg2+ binding site [ion binding]; other site 583346003550 G-X-G motif; other site 583346003551 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 583346003552 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 583346003553 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 583346003554 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 583346003555 dimerization interface [polypeptide binding]; other site 583346003556 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 583346003557 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346003558 dimer interface [polypeptide binding]; other site 583346003559 putative CheW interface [polypeptide binding]; other site 583346003560 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 583346003561 Ligand Binding Site [chemical binding]; other site 583346003562 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 583346003563 Ligand Binding Site [chemical binding]; other site 583346003564 Protein of unknown function (DUF441); Region: DUF441; pfam04284 583346003565 Protein of unknown function (DUF3867); Region: DUF3867; pfam12983 583346003566 TIGR04076 family protein; Region: TIGR04076 583346003567 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346003568 putative CheW interface [polypeptide binding]; other site 583346003569 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 583346003570 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 583346003571 catalytic residues [active] 583346003572 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 583346003573 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 583346003574 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 583346003575 Soluble P-type ATPase [General function prediction only]; Region: COG4087 583346003576 magnesium transport protein MgtC; Provisional; Region: PRK15385 583346003577 MgtC family; Region: MgtC; pfam02308 583346003578 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 583346003579 trimer interface [polypeptide binding]; other site 583346003580 active site 583346003581 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 583346003582 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 583346003583 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 583346003584 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 583346003585 dimer interface [polypeptide binding]; other site 583346003586 active site 583346003587 metal binding site [ion binding]; metal-binding site 583346003588 glutathione binding site [chemical binding]; other site 583346003589 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 583346003590 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 583346003591 dimer interface [polypeptide binding]; other site 583346003592 ssDNA binding site [nucleotide binding]; other site 583346003593 tetramer (dimer of dimers) interface [polypeptide binding]; other site 583346003594 flagellin; Provisional; Region: PRK12804 583346003595 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 583346003596 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 583346003597 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12623 583346003598 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 583346003599 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12630 583346003600 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 583346003601 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 583346003602 flagellar hook-basal body protein FliE; Provisional; Region: fliE; PRK12728 583346003603 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 583346003604 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 583346003605 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 583346003606 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 583346003607 FliG C-terminal domain; Region: FliG_C; pfam01706 583346003608 flagellar assembly protein FliH; Region: FliH_bacil; TIGR03825 583346003609 flagellar protein export ATPase FliI; Region: FliI_clade2; TIGR03497 583346003610 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 583346003611 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 583346003612 Walker A motif/ATP binding site; other site 583346003613 Walker B motif; other site 583346003614 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK07720 583346003615 Flagellar FliJ protein; Region: FliJ; pfam02050 583346003616 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 583346003617 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 583346003618 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 583346003619 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12636 583346003620 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 583346003621 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 583346003622 Flagellar protein (FlbD); Region: FlbD; pfam06289 583346003623 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 583346003624 flagellar biosynthetic protein FliO; Region: FliO_TIGR; TIGR03500 583346003625 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 583346003626 Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliQ; COG1987 583346003627 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional; Region: PRK12772 583346003628 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 583346003629 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 583346003630 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 583346003631 FHIPEP family; Region: FHIPEP; pfam00771 583346003632 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 583346003633 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 583346003634 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 583346003635 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 583346003636 P-loop; other site 583346003637 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 583346003638 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 583346003639 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 583346003640 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 583346003641 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 583346003642 DNA binding residues [nucleotide binding] 583346003643 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12818 583346003644 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 583346003645 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 583346003646 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12817 583346003647 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 583346003648 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 583346003649 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 583346003650 Flagellar protein YcgR; Region: YcgR_2; pfam12945 583346003651 PilZ domain; Region: PilZ; pfam07238 583346003652 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK14869 583346003653 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 583346003654 DRTGG domain; Region: DRTGG; pfam07085 583346003655 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 583346003656 DHHA2 domain; Region: DHHA2; pfam02833 583346003657 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 583346003658 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 583346003659 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 583346003660 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 583346003661 Soluble P-type ATPase [General function prediction only]; Region: COG4087 583346003662 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 583346003663 AAA domain; Region: AAA_32; pfam13654 583346003664 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 583346003665 GTP-binding protein YchF; Reviewed; Region: PRK09601 583346003666 YchF GTPase; Region: YchF; cd01900 583346003667 G1 box; other site 583346003668 GTP/Mg2+ binding site [chemical binding]; other site 583346003669 Switch I region; other site 583346003670 G2 box; other site 583346003671 Switch II region; other site 583346003672 G3 box; other site 583346003673 G4 box; other site 583346003674 G5 box; other site 583346003675 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 583346003676 MraW methylase family; Region: Methyltransf_5; pfam01795 583346003677 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 583346003678 stage V sporulation protein D; Region: spoVD_pbp; TIGR02214 583346003679 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 583346003680 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 583346003681 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 583346003682 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 583346003683 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 583346003684 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 583346003685 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 583346003686 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 583346003687 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 583346003688 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 583346003689 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 583346003690 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 583346003691 Mg++ binding site [ion binding]; other site 583346003692 putative catalytic motif [active] 583346003693 putative substrate binding site [chemical binding]; other site 583346003694 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 583346003695 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 583346003696 Cell division protein FtsQ; Region: FtsQ; pfam03799 583346003697 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 583346003698 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 583346003699 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 583346003700 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 583346003701 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 583346003702 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 583346003703 catalytic residue [active] 583346003704 Protein of unknown function (DUF552); Region: DUF552; pfam04472 583346003705 YGGT family; Region: YGGT; pfam02325 583346003706 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 583346003707 DivIVA protein; Region: DivIVA; pfam05103 583346003708 DivIVA domain; Region: DivI1A_domain; TIGR03544 583346003709 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 583346003710 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 583346003711 lipoprotein signal peptidase; Provisional; Region: PRK14791 583346003712 lipoprotein signal peptidase; Provisional; Region: PRK14787 583346003713 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 583346003714 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 583346003715 RNA binding surface [nucleotide binding]; other site 583346003716 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 583346003717 active site 583346003718 uracil transporter; Provisional; Region: PRK10720 583346003719 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 583346003720 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 583346003721 active site 583346003722 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 583346003723 Domain of unknown function (DUF814); Region: DUF814; pfam05670 583346003724 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 583346003725 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 583346003726 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 583346003727 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 583346003728 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 583346003729 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 583346003730 Walker A motif; other site 583346003731 ATP binding site [chemical binding]; other site 583346003732 Walker B motif; other site 583346003733 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 583346003734 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 583346003735 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 583346003736 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 583346003737 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 583346003738 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 583346003739 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 583346003740 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 583346003741 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 583346003742 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 583346003743 active site 583346003744 elongation factor P; Validated; Region: PRK00529 583346003745 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 583346003746 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 583346003747 RNA binding site [nucleotide binding]; other site 583346003748 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 583346003749 RNA binding site [nucleotide binding]; other site 583346003750 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 583346003751 stage III sporulation protein AA; Region: spore_III_AA; TIGR02858 583346003752 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 583346003753 Walker A motif; other site 583346003754 ATP binding site [chemical binding]; other site 583346003755 Walker B motif; other site 583346003756 stage III sporulation protein SpoAB; Provisional; Region: PRK08307 583346003757 stage III sporulation protein AC; Region: spore_III_AC; TIGR02848 583346003758 stage III sporulation protein AD; Region: spore_III_AD; TIGR02849 583346003759 Stage III sporulation protein AE (spore_III_AE); Region: Spore_III_AE; pfam09546 583346003760 Stage III sporulation protein AF (Spore_III_AF); Region: Spore_III_AF; pfam09581 583346003761 stage III sporulation protein AG; Region: spore_III_AG; TIGR02830 583346003762 SpoIIIAH-like protein; Region: SpoIIIAH; pfam12685 583346003763 Asp23 family; Region: Asp23; pfam03780 583346003764 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 583346003765 putative RNA binding site [nucleotide binding]; other site 583346003766 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 583346003767 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 583346003768 generic binding surface II; other site 583346003769 generic binding surface I; other site 583346003770 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 583346003771 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 583346003772 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 583346003773 substrate binding pocket [chemical binding]; other site 583346003774 chain length determination region; other site 583346003775 substrate-Mg2+ binding site; other site 583346003776 catalytic residues [active] 583346003777 aspartate-rich region 1; other site 583346003778 active site lid residues [active] 583346003779 aspartate-rich region 2; other site 583346003780 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 583346003781 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 583346003782 TPP-binding site; other site 583346003783 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 583346003784 PYR/PP interface [polypeptide binding]; other site 583346003785 dimer interface [polypeptide binding]; other site 583346003786 TPP binding site [chemical binding]; other site 583346003787 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 583346003788 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 583346003789 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 583346003790 RNA binding surface [nucleotide binding]; other site 583346003791 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 583346003792 NAD kinase [Coenzyme metabolism]; Region: nadF; COG0061 583346003793 ATP-NAD kinase; Region: NAD_kinase; pfam01513 583346003794 arginine repressor; Provisional; Region: argR; PRK00441 583346003795 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 583346003796 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 583346003797 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 583346003798 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 583346003799 Walker A/P-loop; other site 583346003800 ATP binding site [chemical binding]; other site 583346003801 Q-loop/lid; other site 583346003802 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 583346003803 ABC transporter signature motif; other site 583346003804 Walker B; other site 583346003805 D-loop; other site 583346003806 H-loop/switch region; other site 583346003807 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 583346003808 SpoIVB peptidase S55; Region: Peptidase_S55; pfam05580 583346003809 sporulation transcription factor Spo0A; Region: spore_0_A; TIGR02875 583346003810 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 583346003811 active site 583346003812 phosphorylation site [posttranslational modification] 583346003813 intermolecular recognition site; other site 583346003814 dimerization interface [polypeptide binding]; other site 583346003815 Sporulation initiation factor Spo0A C terminal; Region: Spo0A_C; pfam08769 583346003816 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 583346003817 dimer interface [polypeptide binding]; other site 583346003818 ADP-ribose binding site [chemical binding]; other site 583346003819 active site 583346003820 nudix motif; other site 583346003821 metal binding site [ion binding]; metal-binding site 583346003822 stage II sporulation protein M; Region: spo_II_M; TIGR02831 583346003823 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 583346003824 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 583346003825 active site 583346003826 DNA binding site [nucleotide binding] 583346003827 Int/Topo IB signature motif; other site 583346003828 phosphopentomutase; Provisional; Region: PRK05362 583346003829 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 583346003830 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 583346003831 pyrimidine-nucleoside phosphorylase; Region: Y_phosphoryl; TIGR02644 583346003832 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 583346003833 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 583346003834 Protein of unknown function DUF86; Region: DUF86; pfam01934 583346003835 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 583346003836 active site 583346003837 NTP binding site [chemical binding]; other site 583346003838 metal binding triad [ion binding]; metal-binding site 583346003839 antibiotic binding site [chemical binding]; other site 583346003840 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346003841 dimer interface [polypeptide binding]; other site 583346003842 putative CheW interface [polypeptide binding]; other site 583346003843 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 583346003844 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 583346003845 putative active site [active] 583346003846 heme pocket [chemical binding]; other site 583346003847 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 583346003848 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 583346003849 putative active site [active] 583346003850 heme pocket [chemical binding]; other site 583346003851 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 583346003852 putative active site [active] 583346003853 heme pocket [chemical binding]; other site 583346003854 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 583346003855 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 583346003856 metal binding site [ion binding]; metal-binding site 583346003857 active site 583346003858 I-site; other site 583346003859 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 583346003860 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 583346003861 Zn2+ binding site [ion binding]; other site 583346003862 Mg2+ binding site [ion binding]; other site 583346003863 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 583346003864 FMN binding site [chemical binding]; other site 583346003865 dimer interface [polypeptide binding]; other site 583346003866 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 583346003867 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 583346003868 metal binding site [ion binding]; metal-binding site 583346003869 active site 583346003870 I-site; other site 583346003871 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 583346003872 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 583346003873 Zn2+ binding site [ion binding]; other site 583346003874 Mg2+ binding site [ion binding]; other site 583346003875 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 583346003876 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 583346003877 4Fe-4S binding domain; Region: Fer4; cl02805 583346003878 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 583346003879 Uncharacterized conserved protein [Function unknown]; Region: COG1751 583346003880 Pyruvate kinase, alpha/beta domain; Region: PK_C; pfam02887 583346003881 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 583346003882 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 583346003883 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 583346003884 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 583346003885 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 583346003886 active site 583346003887 NTP binding site [chemical binding]; other site 583346003888 metal binding triad [ion binding]; metal-binding site 583346003889 segregation and condensation protein A; Reviewed; Region: scpA; PRK00104 583346003890 segregation and condensation protein B; Reviewed; Region: scpB; PRK00135 583346003891 sporulation protein YtfJ; Region: spore_ytfJ; TIGR02874 583346003892 Protein of unknown function (DUF2953); Region: DUF2953; pfam11167 583346003893 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 583346003894 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 583346003895 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 583346003896 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346003897 dimer interface [polypeptide binding]; other site 583346003898 putative CheW interface [polypeptide binding]; other site 583346003899 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 583346003900 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 583346003901 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 583346003902 SLBB domain; Region: SLBB; pfam10531 583346003903 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; pfam03116 583346003904 FMN-binding domain; Region: FMN_bind; cl01081 583346003905 electron transport complex RsxE subunit; Provisional; Region: PRK12405 583346003906 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 583346003907 ferredoxin; Validated; Region: PRK07118 583346003908 Heptaprenyl diphosphate synthase component I; Region: Hpre_diP_synt_I; pfam07456 583346003909 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 583346003910 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 583346003911 lysine decarboxylase CadA; Provisional; Region: PRK15400 583346003912 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 583346003913 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 583346003914 active site 583346003915 motif I; other site 583346003916 motif II; other site 583346003917 SinI restriction endonuclease; Region: RE_SinI; pfam09570 583346003918 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 583346003919 anthranilate synthase component I; Provisional; Region: PRK13570 583346003920 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 583346003921 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 583346003922 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 583346003923 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 583346003924 glutamine binding [chemical binding]; other site 583346003925 catalytic triad [active] 583346003926 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 583346003927 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 583346003928 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 583346003929 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 583346003930 active site 583346003931 ribulose/triose binding site [chemical binding]; other site 583346003932 phosphate binding site [ion binding]; other site 583346003933 substrate (anthranilate) binding pocket [chemical binding]; other site 583346003934 product (indole) binding pocket [chemical binding]; other site 583346003935 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 583346003936 active site 583346003937 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 583346003938 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 583346003939 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346003940 catalytic residue [active] 583346003941 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 583346003942 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 583346003943 substrate binding site [chemical binding]; other site 583346003944 active site 583346003945 catalytic residues [active] 583346003946 heterodimer interface [polypeptide binding]; other site 583346003947 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 583346003948 putative homodimer interface [polypeptide binding]; other site 583346003949 putative homotetramer interface [polypeptide binding]; other site 583346003950 putative allosteric switch controlling residues; other site 583346003951 putative metal binding site [ion binding]; other site 583346003952 putative homodimer-homodimer interface [polypeptide binding]; other site 583346003953 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 583346003954 Uncharacterized conserved protein [Function unknown]; Region: COG2966 583346003955 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 583346003956 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 583346003957 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 583346003958 dimer interface [polypeptide binding]; other site 583346003959 active site 583346003960 glycine-pyridoxal phosphate binding site [chemical binding]; other site 583346003961 folate binding site [chemical binding]; other site 583346003962 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 583346003963 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 583346003964 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 583346003965 dimerization interface [polypeptide binding]; other site 583346003966 ATP binding site [chemical binding]; other site 583346003967 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 583346003968 dimerization interface [polypeptide binding]; other site 583346003969 ATP binding site [chemical binding]; other site 583346003970 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 583346003971 putative active site [active] 583346003972 catalytic triad [active] 583346003973 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 583346003974 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 583346003975 Walker A/P-loop; other site 583346003976 ATP binding site [chemical binding]; other site 583346003977 Q-loop/lid; other site 583346003978 ABC transporter signature motif; other site 583346003979 Walker B; other site 583346003980 D-loop; other site 583346003981 H-loop/switch region; other site 583346003982 lantibiotic protection ABC transporter permease subunit, MutE/EpiE family; Region: lanti_perm_MutE; TIGR03732 583346003983 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 583346003984 lantibiotic protection ABC transporter permease subunit, MutG family; Region: lanti_perm_MutG; TIGR03733 583346003985 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 583346003986 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 583346003987 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346003988 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 583346003989 dimer interface [polypeptide binding]; other site 583346003990 phosphorylation site [posttranslational modification] 583346003991 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 583346003992 ATP binding site [chemical binding]; other site 583346003993 Mg2+ binding site [ion binding]; other site 583346003994 G-X-G motif; other site 583346003995 EDD domain protein, DegV family; Region: DegV; TIGR00762 583346003996 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 583346003997 Cache domain; Region: Cache_1; pfam02743 583346003998 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 583346003999 dimerization interface [polypeptide binding]; other site 583346004000 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 583346004001 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346004002 dimer interface [polypeptide binding]; other site 583346004003 putative CheW interface [polypeptide binding]; other site 583346004004 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 583346004005 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 583346004006 dimer interface [polypeptide binding]; other site 583346004007 motif 1; other site 583346004008 active site 583346004009 motif 2; other site 583346004010 motif 3; other site 583346004011 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 583346004012 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 583346004013 histidinol dehydrogenase; Region: hisD; TIGR00069 583346004014 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 583346004015 NAD binding site [chemical binding]; other site 583346004016 dimerization interface [polypeptide binding]; other site 583346004017 product binding site; other site 583346004018 substrate binding site [chemical binding]; other site 583346004019 zinc binding site [ion binding]; other site 583346004020 catalytic residues [active] 583346004021 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 583346004022 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 583346004023 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346004024 homodimer interface [polypeptide binding]; other site 583346004025 catalytic residue [active] 583346004026 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 583346004027 putative active site pocket [active] 583346004028 4-fold oligomerization interface [polypeptide binding]; other site 583346004029 metal binding residues [ion binding]; metal-binding site 583346004030 3-fold/trimer interface [polypeptide binding]; other site 583346004031 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 583346004032 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 583346004033 putative active site [active] 583346004034 oxyanion strand; other site 583346004035 catalytic triad [active] 583346004036 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 583346004037 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 583346004038 catalytic residues [active] 583346004039 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 583346004040 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 583346004041 substrate binding site [chemical binding]; other site 583346004042 glutamase interaction surface [polypeptide binding]; other site 583346004043 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 583346004044 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 583346004045 metal binding site [ion binding]; metal-binding site 583346004046 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 583346004047 active site 583346004048 histidinol-phosphatase; Provisional; Region: PRK05588 583346004049 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 583346004050 active site 583346004051 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 583346004052 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 583346004053 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 583346004054 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 583346004055 putative active site [active] 583346004056 putative metal binding site [ion binding]; other site 583346004057 recombination factor protein RarA; Reviewed; Region: PRK13342 583346004058 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 583346004059 Walker A motif; other site 583346004060 ATP binding site [chemical binding]; other site 583346004061 Walker B motif; other site 583346004062 arginine finger; other site 583346004063 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 583346004064 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 583346004065 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 583346004066 non-specific DNA binding site [nucleotide binding]; other site 583346004067 salt bridge; other site 583346004068 sequence-specific DNA binding site [nucleotide binding]; other site 583346004069 Cupin domain; Region: Cupin_2; pfam07883 583346004070 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 583346004071 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 583346004072 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 583346004073 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 583346004074 dimer interface [polypeptide binding]; other site 583346004075 conserved gate region; other site 583346004076 putative PBP binding loops; other site 583346004077 ABC-ATPase subunit interface; other site 583346004078 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 583346004079 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 583346004080 dimer interface [polypeptide binding]; other site 583346004081 conserved gate region; other site 583346004082 putative PBP binding loops; other site 583346004083 ABC-ATPase subunit interface; other site 583346004084 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 583346004085 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 583346004086 Walker A/P-loop; other site 583346004087 ATP binding site [chemical binding]; other site 583346004088 Q-loop/lid; other site 583346004089 ABC transporter signature motif; other site 583346004090 Walker B; other site 583346004091 D-loop; other site 583346004092 H-loop/switch region; other site 583346004093 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 583346004094 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 583346004095 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 583346004096 Walker A/P-loop; other site 583346004097 ATP binding site [chemical binding]; other site 583346004098 Q-loop/lid; other site 583346004099 ABC transporter signature motif; other site 583346004100 Walker B; other site 583346004101 D-loop; other site 583346004102 H-loop/switch region; other site 583346004103 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 583346004104 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 583346004105 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 583346004106 active site 583346004107 dimer interface [polypeptide binding]; other site 583346004108 Transcriptional regulator; Region: Rrf2; cl17282 583346004109 Rrf2 family protein; Region: rrf2_super; TIGR00738 583346004110 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 583346004111 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 583346004112 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 583346004113 catalytic residue [active] 583346004114 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 583346004115 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 583346004116 trimerization site [polypeptide binding]; other site 583346004117 active site 583346004118 PRC-barrel domain; Region: PRC; pfam05239 583346004119 PRC-barrel domain; Region: PRC; pfam05239 583346004120 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 583346004121 Domain of unknown function DUF20; Region: UPF0118; pfam01594 583346004122 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346004123 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346004124 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346004125 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 583346004126 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 583346004127 motif 1; other site 583346004128 active site 583346004129 motif 2; other site 583346004130 motif 3; other site 583346004131 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 583346004132 hypothetical protein; Provisional; Region: PRK05473 583346004133 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 583346004134 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 583346004135 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 583346004136 metal binding site 2 [ion binding]; metal-binding site 583346004137 putative DNA binding helix; other site 583346004138 metal binding site 1 [ion binding]; metal-binding site 583346004139 dimer interface [polypeptide binding]; other site 583346004140 structural Zn2+ binding site [ion binding]; other site 583346004141 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 583346004142 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 583346004143 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 583346004144 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 583346004145 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 583346004146 G1 box; other site 583346004147 putative GEF interaction site [polypeptide binding]; other site 583346004148 GTP/Mg2+ binding site [chemical binding]; other site 583346004149 Switch I region; other site 583346004150 G2 box; other site 583346004151 G3 box; other site 583346004152 Switch II region; other site 583346004153 G4 box; other site 583346004154 G5 box; other site 583346004155 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 583346004156 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 583346004157 YceG-like family; Region: YceG; pfam02618 583346004158 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 583346004159 dimerization interface [polypeptide binding]; other site 583346004160 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 583346004161 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 583346004162 S-adenosylmethionine binding site [chemical binding]; other site 583346004163 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 583346004164 Quinolinate phosphoribosyl transferase, C-terminal domain; Region: QRPTase_C; pfam01729 583346004165 Peptidase family U32; Region: Peptidase_U32; pfam01136 583346004166 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 583346004167 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 583346004168 sporulation sigma factor SigK; Reviewed; Region: PRK05803 583346004169 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 583346004170 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 583346004171 DNA binding residues [nucleotide binding] 583346004172 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 583346004173 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 583346004174 Walker A motif; other site 583346004175 ATP binding site [chemical binding]; other site 583346004176 Walker B motif; other site 583346004177 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 583346004178 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 583346004179 DXD motif; other site 583346004180 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 583346004181 Cell division protein FtsA; Region: FtsA; smart00842 583346004182 Cell division protein FtsA; Region: FtsA; pfam14450 583346004183 cell division protein FtsZ; Validated; Region: PRK09330 583346004184 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 583346004185 nucleotide binding site [chemical binding]; other site 583346004186 SulA interaction site; other site 583346004187 Sporulation factor SpoIIGA; Region: Peptidase_U4; pfam03419 583346004188 sigma-E processing peptidase SpoIIGA; Region: spore_II_GA; TIGR02854 583346004189 sporulation sigma factor SigE; Reviewed; Region: PRK08301 583346004190 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 583346004191 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 583346004192 DNA binding residues [nucleotide binding] 583346004193 sporulation sigma factor SigG; Reviewed; Region: PRK08215 583346004194 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 583346004195 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 583346004196 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 583346004197 DNA binding residues [nucleotide binding] 583346004198 sporulation protein, YlmC/YmxH family; Region: spore_YlmC_YmxH; TIGR02888 583346004199 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 583346004200 ATP cone domain; Region: ATP-cone; pfam03477 583346004201 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 583346004202 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 583346004203 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346004204 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 583346004205 active site 583346004206 phosphorylation site [posttranslational modification] 583346004207 intermolecular recognition site; other site 583346004208 dimerization interface [polypeptide binding]; other site 583346004209 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 583346004210 DNA binding site [nucleotide binding] 583346004211 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 583346004212 dimerization interface [polypeptide binding]; other site 583346004213 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 583346004214 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 583346004215 putative active site [active] 583346004216 heme pocket [chemical binding]; other site 583346004217 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 583346004218 dimer interface [polypeptide binding]; other site 583346004219 phosphorylation site [posttranslational modification] 583346004220 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 583346004221 ATP binding site [chemical binding]; other site 583346004222 Mg2+ binding site [ion binding]; other site 583346004223 G-X-G motif; other site 583346004224 PBP superfamily domain; Region: PBP_like_2; cl17296 583346004225 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 583346004226 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 583346004227 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 583346004228 dimer interface [polypeptide binding]; other site 583346004229 conserved gate region; other site 583346004230 putative PBP binding loops; other site 583346004231 ABC-ATPase subunit interface; other site 583346004232 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 583346004233 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 583346004234 dimer interface [polypeptide binding]; other site 583346004235 conserved gate region; other site 583346004236 putative PBP binding loops; other site 583346004237 ABC-ATPase subunit interface; other site 583346004238 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 583346004239 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 583346004240 Walker A/P-loop; other site 583346004241 ATP binding site [chemical binding]; other site 583346004242 Q-loop/lid; other site 583346004243 ABC transporter signature motif; other site 583346004244 Walker B; other site 583346004245 D-loop; other site 583346004246 H-loop/switch region; other site 583346004247 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 583346004248 PhoU domain; Region: PhoU; pfam01895 583346004249 PhoU domain; Region: PhoU; pfam01895 583346004250 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 583346004251 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 583346004252 putative FeS-containing Cyanobacterial-specific oxidoreductase; Region: cyano_FeS_chp; TIGR03279 583346004253 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 583346004254 Protein of unknown function (DUF512); Region: DUF512; pfam04459 583346004255 GTP-binding protein Der; Reviewed; Region: PRK00093 583346004256 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 583346004257 G1 box; other site 583346004258 GTP/Mg2+ binding site [chemical binding]; other site 583346004259 Switch I region; other site 583346004260 G2 box; other site 583346004261 Switch II region; other site 583346004262 G3 box; other site 583346004263 G4 box; other site 583346004264 G5 box; other site 583346004265 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 583346004266 G1 box; other site 583346004267 GTP/Mg2+ binding site [chemical binding]; other site 583346004268 Switch I region; other site 583346004269 G2 box; other site 583346004270 G3 box; other site 583346004271 Switch II region; other site 583346004272 G4 box; other site 583346004273 G5 box; other site 583346004274 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 583346004275 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 583346004276 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 583346004277 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 583346004278 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 583346004279 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 583346004280 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346004281 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 583346004282 active site 583346004283 phosphorylation site [posttranslational modification] 583346004284 intermolecular recognition site; other site 583346004285 dimerization interface [polypeptide binding]; other site 583346004286 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 583346004287 DNA binding site [nucleotide binding] 583346004288 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346004289 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 583346004290 dimerization interface [polypeptide binding]; other site 583346004291 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 583346004292 dimer interface [polypeptide binding]; other site 583346004293 phosphorylation site [posttranslational modification] 583346004294 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 583346004295 ATP binding site [chemical binding]; other site 583346004296 Mg2+ binding site [ion binding]; other site 583346004297 G-X-G motif; other site 583346004298 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 583346004299 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 583346004300 Ligand binding site; other site 583346004301 Putative Catalytic site; other site 583346004302 DXD motif; other site 583346004303 Stage IV sporulation protein A (spore_IV_A); Region: Spore_IV_A; pfam09547 583346004304 stage IV sporulation protein A; Region: spore_IV_A; TIGR02836 583346004305 hypothetical protein; Provisional; Region: PRK11820 583346004306 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 583346004307 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 583346004308 hypothetical protein; Provisional; Region: PRK04323 583346004309 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 583346004310 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 583346004311 catalytic site [active] 583346004312 G-X2-G-X-G-K; other site 583346004313 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 583346004314 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 583346004315 Flavoprotein; Region: Flavoprotein; pfam02441 583346004316 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 583346004317 primosome assembly protein PriA; Validated; Region: PRK05580 583346004318 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 583346004319 ATP binding site [chemical binding]; other site 583346004320 putative Mg++ binding site [ion binding]; other site 583346004321 helicase superfamily c-terminal domain; Region: HELICc; smart00490 583346004322 ATP-binding site [chemical binding]; other site 583346004323 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 583346004324 active site 583346004325 catalytic residues [active] 583346004326 metal binding site [ion binding]; metal-binding site 583346004327 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 583346004328 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 583346004329 putative active site [active] 583346004330 substrate binding site [chemical binding]; other site 583346004331 putative cosubstrate binding site; other site 583346004332 catalytic site [active] 583346004333 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 583346004334 substrate binding site [chemical binding]; other site 583346004335 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 583346004336 16S rRNA methyltransferase B; Provisional; Region: PRK14902 583346004337 NusB family; Region: NusB; pfam01029 583346004338 putative RNA binding site [nucleotide binding]; other site 583346004339 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 583346004340 S-adenosylmethionine binding site [chemical binding]; other site 583346004341 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14454 583346004342 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 583346004343 FeS/SAM binding site; other site 583346004344 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 583346004345 Protein phosphatase 2C; Region: PP2C; pfam00481 583346004346 active site 583346004347 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 583346004348 Catalytic domain of Protein Kinases; Region: PKc; cd00180 583346004349 active site 583346004350 ATP binding site [chemical binding]; other site 583346004351 substrate binding site [chemical binding]; other site 583346004352 activation loop (A-loop); other site 583346004353 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 583346004354 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 583346004355 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 583346004356 GTPase RsgA; Reviewed; Region: PRK00098 583346004357 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 583346004358 RNA binding site [nucleotide binding]; other site 583346004359 homodimer interface [polypeptide binding]; other site 583346004360 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 583346004361 GTPase/Zn-binding domain interface [polypeptide binding]; other site 583346004362 GTP/Mg2+ binding site [chemical binding]; other site 583346004363 G4 box; other site 583346004364 G5 box; other site 583346004365 G1 box; other site 583346004366 Switch I region; other site 583346004367 G2 box; other site 583346004368 G3 box; other site 583346004369 Switch II region; other site 583346004370 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 583346004371 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 583346004372 substrate binding site [chemical binding]; other site 583346004373 hexamer interface [polypeptide binding]; other site 583346004374 metal binding site [ion binding]; metal-binding site 583346004375 Thiamine pyrophosphokinase; Region: TPK; cd07995 583346004376 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 583346004377 active site 583346004378 dimerization interface [polypeptide binding]; other site 583346004379 thiamine binding site [chemical binding]; other site 583346004380 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 583346004381 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 583346004382 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 583346004383 NAD binding site [chemical binding]; other site 583346004384 dimer interface [polypeptide binding]; other site 583346004385 substrate binding site [chemical binding]; other site 583346004386 tetramer (dimer of dimers) interface [polypeptide binding]; other site 583346004387 Asp23 family; Region: Asp23; pfam03780 583346004388 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 583346004389 DAK2 domain; Region: Dak2; pfam02734 583346004390 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 583346004391 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 583346004392 ssDNA binding site; other site 583346004393 generic binding surface II; other site 583346004394 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 583346004395 ATP binding site [chemical binding]; other site 583346004396 putative Mg++ binding site [ion binding]; other site 583346004397 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 583346004398 nucleotide binding region [chemical binding]; other site 583346004399 ATP-binding site [chemical binding]; other site 583346004400 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 583346004401 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 583346004402 S-adenosylmethionine binding site [chemical binding]; other site 583346004403 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 583346004404 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 583346004405 active site 583346004406 (T/H)XGH motif; other site 583346004407 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 583346004408 sporulation integral membrane protein YlbJ; Region: spore_ylbJ; TIGR02871 583346004409 hypothetical protein; Provisional; Region: PRK13670 583346004410 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; cl17673 583346004411 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 583346004412 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 583346004413 propionate/acetate kinase; Provisional; Region: PRK12379 583346004414 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 583346004415 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 583346004416 putative phosphate acyltransferase; Provisional; Region: PRK05331 583346004417 acyl carrier protein; Provisional; Region: acpP; PRK00982 583346004418 ribonuclease III; Reviewed; Region: rnc; PRK00102 583346004419 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 583346004420 dimerization interface [polypeptide binding]; other site 583346004421 active site 583346004422 metal binding site [ion binding]; metal-binding site 583346004423 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 583346004424 dsRNA binding site [nucleotide binding]; other site 583346004425 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 583346004426 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 583346004427 FeS/SAM binding site; other site 583346004428 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 583346004429 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 583346004430 Walker A/P-loop; other site 583346004431 ATP binding site [chemical binding]; other site 583346004432 Q-loop/lid; other site 583346004433 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 583346004434 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 583346004435 ABC transporter signature motif; other site 583346004436 Walker B; other site 583346004437 D-loop; other site 583346004438 H-loop/switch region; other site 583346004439 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 583346004440 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 583346004441 P loop; other site 583346004442 GTP binding site [chemical binding]; other site 583346004443 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 583346004444 DNA binding residues [nucleotide binding] 583346004445 signal recognition particle protein; Provisional; Region: PRK10867 583346004446 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 583346004447 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 583346004448 P loop; other site 583346004449 GTP binding site [chemical binding]; other site 583346004450 Signal peptide binding domain; Region: SRP_SPB; pfam02978 583346004451 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 583346004452 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 583346004453 hypothetical protein; Provisional; Region: PRK00468 583346004454 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 583346004455 RimM N-terminal domain; Region: RimM; pfam01782 583346004456 PRC-barrel domain; Region: PRC; pfam05239 583346004457 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 583346004458 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 583346004459 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 583346004460 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 583346004461 Catalytic site [active] 583346004462 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 583346004463 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 583346004464 GTP/Mg2+ binding site [chemical binding]; other site 583346004465 G4 box; other site 583346004466 G5 box; other site 583346004467 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 583346004468 G1 box; other site 583346004469 G1 box; other site 583346004470 GTP/Mg2+ binding site [chemical binding]; other site 583346004471 Switch I region; other site 583346004472 G2 box; other site 583346004473 G2 box; other site 583346004474 G3 box; other site 583346004475 G3 box; other site 583346004476 Switch II region; other site 583346004477 Switch II region; other site 583346004478 G4 box; other site 583346004479 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 583346004480 RNA/DNA hybrid binding site [nucleotide binding]; other site 583346004481 active site 583346004482 hypothetical protein; Reviewed; Region: PRK12497 583346004483 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 583346004484 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 583346004485 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 583346004486 Walker A motif; other site 583346004487 ATP binding site [chemical binding]; other site 583346004488 Walker B motif; other site 583346004489 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 583346004490 Endonuclease IV [DNA replication, recombination, and repair]; Region: Nfo; COG0648 583346004491 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 583346004492 AP (apurinic/apyrimidinic) site pocket; other site 583346004493 DNA interaction; other site 583346004494 Metal-binding active site; metal-binding site 583346004495 DNA protecting protein DprA; Region: dprA; TIGR00732 583346004496 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 583346004497 DNA topoisomerase I; Validated; Region: PRK05582 583346004498 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 583346004499 active site 583346004500 interdomain interaction site; other site 583346004501 putative metal-binding site [ion binding]; other site 583346004502 nucleotide binding site [chemical binding]; other site 583346004503 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 583346004504 domain I; other site 583346004505 DNA binding groove [nucleotide binding] 583346004506 phosphate binding site [ion binding]; other site 583346004507 domain II; other site 583346004508 domain III; other site 583346004509 nucleotide binding site [chemical binding]; other site 583346004510 catalytic site [active] 583346004511 domain IV; other site 583346004512 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 583346004513 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 583346004514 transcriptional repressor CodY; Validated; Region: PRK04158 583346004515 CodY GAF-like domain; Region: CodY; pfam06018 583346004516 CodY helix-turn-helix domain; Region: HTH_CodY; pfam08222 583346004517 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 583346004518 rRNA interaction site [nucleotide binding]; other site 583346004519 S8 interaction site; other site 583346004520 putative laminin-1 binding site; other site 583346004521 elongation factor Ts; Provisional; Region: tsf; PRK09377 583346004522 UBA/TS-N domain; Region: UBA; pfam00627 583346004523 Elongation factor TS; Region: EF_TS; pfam00889 583346004524 Elongation factor TS; Region: EF_TS; pfam00889 583346004525 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 583346004526 putative nucleotide binding site [chemical binding]; other site 583346004527 uridine monophosphate binding site [chemical binding]; other site 583346004528 homohexameric interface [polypeptide binding]; other site 583346004529 ribosome recycling factor; Reviewed; Region: frr; PRK00083 583346004530 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 583346004531 hinge region; other site 583346004532 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14830 583346004533 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 583346004534 catalytic residue [active] 583346004535 putative FPP diphosphate binding site; other site 583346004536 putative FPP binding hydrophobic cleft; other site 583346004537 dimer interface [polypeptide binding]; other site 583346004538 putative IPP diphosphate binding site; other site 583346004539 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 583346004540 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 583346004541 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 583346004542 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 583346004543 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 583346004544 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 583346004545 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 583346004546 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 583346004547 active site 583346004548 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 583346004549 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 583346004550 putative substrate binding region [chemical binding]; other site 583346004551 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 583346004552 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 583346004553 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 583346004554 DNA polymerase III PolC; Validated; Region: polC; PRK00448 583346004555 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 583346004556 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 583346004557 generic binding surface II; other site 583346004558 generic binding surface I; other site 583346004559 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 583346004560 active site 583346004561 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 583346004562 active site 583346004563 catalytic site [active] 583346004564 substrate binding site [chemical binding]; other site 583346004565 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; Region: PHP_PolIIIA_POLC; cd07435 583346004566 ribosome maturation protein RimP; Reviewed; Region: PRK00092 583346004567 Sm and related proteins; Region: Sm_like; cl00259 583346004568 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 583346004569 putative oligomer interface [polypeptide binding]; other site 583346004570 putative RNA binding site [nucleotide binding]; other site 583346004571 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 583346004572 NusA N-terminal domain; Region: NusA_N; pfam08529 583346004573 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 583346004574 RNA binding site [nucleotide binding]; other site 583346004575 homodimer interface [polypeptide binding]; other site 583346004576 NusA-like KH domain; Region: KH_5; pfam13184 583346004577 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 583346004578 G-X-X-G motif; other site 583346004579 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 583346004580 putative RNA binding cleft [nucleotide binding]; other site 583346004581 ribosomal protein L7Ae family protein; Provisional; Region: PRK05583 583346004582 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 583346004583 translation initiation factor IF-2; Region: IF-2; TIGR00487 583346004584 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 583346004585 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 583346004586 G1 box; other site 583346004587 putative GEF interaction site [polypeptide binding]; other site 583346004588 GTP/Mg2+ binding site [chemical binding]; other site 583346004589 Switch I region; other site 583346004590 G2 box; other site 583346004591 G3 box; other site 583346004592 Switch II region; other site 583346004593 G4 box; other site 583346004594 G5 box; other site 583346004595 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 583346004596 Translation-initiation factor 2; Region: IF-2; pfam11987 583346004597 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 583346004598 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 583346004599 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 583346004600 DHH family; Region: DHH; pfam01368 583346004601 DHHA1 domain; Region: DHHA1; pfam02272 583346004602 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK00130 583346004603 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 583346004604 RNA binding site [nucleotide binding]; other site 583346004605 active site 583346004606 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 583346004607 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 583346004608 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 583346004609 active site 583346004610 Riboflavin kinase; Region: Flavokinase; pfam01687 583346004611 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 583346004612 16S/18S rRNA binding site [nucleotide binding]; other site 583346004613 S13e-L30e interaction site [polypeptide binding]; other site 583346004614 25S rRNA binding site [nucleotide binding]; other site 583346004615 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 583346004616 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 583346004617 RNase E interface [polypeptide binding]; other site 583346004618 trimer interface [polypeptide binding]; other site 583346004619 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 583346004620 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 583346004621 RNase E interface [polypeptide binding]; other site 583346004622 trimer interface [polypeptide binding]; other site 583346004623 active site 583346004624 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 583346004625 putative nucleic acid binding region [nucleotide binding]; other site 583346004626 G-X-X-G motif; other site 583346004627 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 583346004628 RNA binding site [nucleotide binding]; other site 583346004629 domain interface; other site 583346004630 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 583346004631 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 583346004632 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 583346004633 Protein implicated in RNA metabolism, contains PRC-barrel domain [General function prediction only]; Region: COG1873; cl17889 583346004634 aspartate kinase I; Reviewed; Region: PRK08210 583346004635 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 583346004636 nucleotide binding site [chemical binding]; other site 583346004637 substrate binding site [chemical binding]; other site 583346004638 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_1; cd04914 583346004639 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI; Region: ACT_AKi-DapG-BS_2; cd04937 583346004640 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 583346004641 Clp protease; Region: CLP_protease; pfam00574 583346004642 active site 583346004643 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 583346004644 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 583346004645 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 583346004646 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 583346004647 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 583346004648 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 583346004649 FeS/SAM binding site; other site 583346004650 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 583346004651 recombinase A; Provisional; Region: recA; PRK09354 583346004652 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 583346004653 hexamer interface [polypeptide binding]; other site 583346004654 Walker A motif; other site 583346004655 ATP binding site [chemical binding]; other site 583346004656 Walker B motif; other site 583346004657 phosphodiesterase; Provisional; Region: PRK12704 583346004658 Protein gp23 (Bacteriophage A118); Region: Phage_Gp23; pfam10669 583346004659 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 583346004660 Zn2+ binding site [ion binding]; other site 583346004661 Mg2+ binding site [ion binding]; other site 583346004662 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 583346004663 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 583346004664 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 583346004665 aspartate aminotransferase; Provisional; Region: PRK05764 583346004666 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 583346004667 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346004668 homodimer interface [polypeptide binding]; other site 583346004669 catalytic residue [active] 583346004670 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 583346004671 dimerization domain swap beta strand [polypeptide binding]; other site 583346004672 regulatory protein interface [polypeptide binding]; other site 583346004673 active site 583346004674 regulatory phosphorylation site [posttranslational modification]; other site 583346004675 Domain of unknown function (DUF378); Region: DUF378; cl00943 583346004676 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 583346004677 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 583346004678 tetramer interface [polypeptide binding]; other site 583346004679 active site 583346004680 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 583346004681 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 583346004682 active site 583346004683 HIGH motif; other site 583346004684 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 583346004685 active site 583346004686 KMSKS motif; other site 583346004687 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 583346004688 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 583346004689 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 583346004690 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 583346004691 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 583346004692 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 583346004693 putative active site [active] 583346004694 putative CoA binding site [chemical binding]; other site 583346004695 nudix motif; other site 583346004696 metal binding site [ion binding]; metal-binding site 583346004697 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 583346004698 MarR family; Region: MarR_2; pfam12802 583346004699 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 583346004700 MarR family; Region: MarR_2; cl17246 583346004701 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 583346004702 Major Facilitator Superfamily; Region: MFS_1; pfam07690 583346004703 putative substrate translocation pore; other site 583346004704 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 583346004705 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 583346004706 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 583346004707 dimer interface [polypeptide binding]; other site 583346004708 phosphorylation site [posttranslational modification] 583346004709 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 583346004710 ATP binding site [chemical binding]; other site 583346004711 Mg2+ binding site [ion binding]; other site 583346004712 G-X-G motif; other site 583346004713 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 583346004714 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. 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, reaction...; Region: NAPRTase_A; cd01570 583346004715 active site 583346004716 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 583346004717 Part of AAA domain; Region: AAA_19; pfam13245 583346004718 AAA domain; Region: AAA_14; pfam13173 583346004719 Family description; Region: UvrD_C_2; pfam13538 583346004720 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 583346004721 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 583346004722 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 583346004723 Ligand Binding Site [chemical binding]; other site 583346004724 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 583346004725 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 583346004726 dimer interface [polypeptide binding]; other site 583346004727 phosphorylation site [posttranslational modification] 583346004728 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 583346004729 ATP binding site [chemical binding]; other site 583346004730 Mg2+ binding site [ion binding]; other site 583346004731 G-X-G motif; other site 583346004732 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 583346004733 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 583346004734 active site 583346004735 phosphorylation site [posttranslational modification] 583346004736 intermolecular recognition site; other site 583346004737 dimerization interface [polypeptide binding]; other site 583346004738 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 583346004739 DNA binding site [nucleotide binding] 583346004740 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 583346004741 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 583346004742 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 583346004743 Soluble P-type ATPase [General function prediction only]; Region: COG4087 583346004744 potassium-transporting ATPase subunit C; Provisional; Region: PRK13995 583346004745 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 583346004746 Isochorismatase family; Region: Isochorismatase; pfam00857 583346004747 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 583346004748 catalytic triad [active] 583346004749 dimer interface [polypeptide binding]; other site 583346004750 conserved cis-peptide bond; other site 583346004751 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 583346004752 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 583346004753 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346004754 dimer interface [polypeptide binding]; other site 583346004755 putative CheW interface [polypeptide binding]; other site 583346004756 cell division protein FtsA; Region: ftsA; TIGR01174 583346004757 Cell division protein FtsA; Region: FtsA; smart00842 583346004758 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 583346004759 nucleotide binding site [chemical binding]; other site 583346004760 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 583346004761 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 583346004762 metal binding site [ion binding]; metal-binding site 583346004763 dimer interface [polypeptide binding]; other site 583346004764 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 583346004765 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 583346004766 RNA binding surface [nucleotide binding]; other site 583346004767 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 583346004768 active site 583346004769 stage V sporulation protein B; Region: spore_V_B; TIGR02900 583346004770 Stage V sporulation protein B, also known as Stage III sporulation protein F, and related proteins; Region: MATE_SpoVB_like; cd13124 583346004771 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 583346004772 putative efflux protein, MATE family; Region: matE; TIGR00797 583346004773 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 583346004774 Zinc dependent phospholipase C (alpha toxin); Region: Zn_dep_PLPC; cd11009 583346004775 Zn binding site [ion binding]; other site 583346004776 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 583346004777 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 583346004778 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 583346004779 HPr kinase/phosphorylase; Provisional; Region: PRK05428 583346004780 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 583346004781 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 583346004782 Hpr binding site; other site 583346004783 active site 583346004784 homohexamer subunit interaction site [polypeptide binding]; other site 583346004785 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 583346004786 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 583346004787 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 583346004788 Major Facilitator Superfamily; Region: MFS_1; pfam07690 583346004789 putative substrate translocation pore; other site 583346004790 Protease prsW family; Region: PrsW-protease; pfam13367 583346004791 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346004792 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 583346004793 active site 583346004794 phosphorylation site [posttranslational modification] 583346004795 intermolecular recognition site; other site 583346004796 dimerization interface [polypeptide binding]; other site 583346004797 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 583346004798 DNA binding site [nucleotide binding] 583346004799 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346004800 HAMP domain; Region: HAMP; pfam00672 583346004801 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 583346004802 dimer interface [polypeptide binding]; other site 583346004803 phosphorylation site [posttranslational modification] 583346004804 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 583346004805 ATP binding site [chemical binding]; other site 583346004806 Mg2+ binding site [ion binding]; other site 583346004807 G-X-G motif; other site 583346004808 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 583346004809 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 583346004810 S-adenosylmethionine binding site [chemical binding]; other site 583346004811 CAAX protease self-immunity; Region: Abi; pfam02517 583346004812 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 583346004813 UbiA prenyltransferase family; Region: UbiA; pfam01040 583346004814 oxidoreductase; Provisional; Region: PRK10015 583346004815 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 583346004816 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 583346004817 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 583346004818 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 583346004819 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 583346004820 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 583346004821 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 583346004822 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 583346004823 acyl-activating enzyme (AAE) consensus motif; other site 583346004824 active site 583346004825 AMP binding site [chemical binding]; other site 583346004826 substrate binding site [chemical binding]; other site 583346004827 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 583346004828 Condensation domain; Region: Condensation; pfam00668 583346004829 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 583346004830 Nonribosomal peptide synthase; Region: NRPS; pfam08415 583346004831 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 583346004832 acyl-activating enzyme (AAE) consensus motif; other site 583346004833 AMP binding site [chemical binding]; other site 583346004834 Methyltransferase domain; Region: Methyltransf_12; pfam08242 583346004835 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 583346004836 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 583346004837 Condensation domain; Region: Condensation; pfam00668 583346004838 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 583346004839 Nonribosomal peptide synthase; Region: NRPS; pfam08415 583346004840 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 583346004841 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 583346004842 thiazolinyl imide reductase; Region: thiaz-red; TIGR01761 583346004843 Condensation domain; Region: Condensation; pfam00668 583346004844 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 583346004845 Nonribosomal peptide synthase; Region: NRPS; pfam08415 583346004846 Methyltransferase domain; Region: Methyltransf_12; pfam08242 583346004847 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 583346004848 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 583346004849 Oxidoreductase (NAD-binding), involved in siderophore biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PchG; COG4693 583346004850 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 583346004851 Condensation domain; Region: Condensation; pfam00668 583346004852 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 583346004853 Nonribosomal peptide synthase; Region: NRPS; pfam08415 583346004854 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 583346004855 acyl-activating enzyme (AAE) consensus motif; other site 583346004856 AMP binding site [chemical binding]; other site 583346004857 Methyltransferase domain; Region: Methyltransf_23; pfam13489 583346004858 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 583346004859 S-adenosylmethionine binding site [chemical binding]; other site 583346004860 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 583346004861 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 583346004862 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 583346004863 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 583346004864 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346004865 Walker A/P-loop; other site 583346004866 ATP binding site [chemical binding]; other site 583346004867 Q-loop/lid; other site 583346004868 ABC transporter signature motif; other site 583346004869 Walker B; other site 583346004870 D-loop; other site 583346004871 H-loop/switch region; other site 583346004872 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 583346004873 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 583346004874 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 583346004875 Walker A/P-loop; other site 583346004876 ATP binding site [chemical binding]; other site 583346004877 Q-loop/lid; other site 583346004878 ABC transporter signature motif; other site 583346004879 Walker B; other site 583346004880 D-loop; other site 583346004881 H-loop/switch region; other site 583346004882 Hypothetical bacterial integral membrane protein (Trep_Strep); Region: Trep_Strep; cl09823 583346004883 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 583346004884 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 583346004885 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 583346004886 Walker A/P-loop; other site 583346004887 ATP binding site [chemical binding]; other site 583346004888 Q-loop/lid; other site 583346004889 ABC transporter signature motif; other site 583346004890 Walker B; other site 583346004891 D-loop; other site 583346004892 H-loop/switch region; other site 583346004893 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 583346004894 Second domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain2; cd03226 583346004895 Walker A/P-loop; other site 583346004896 ATP binding site [chemical binding]; other site 583346004897 Q-loop/lid; other site 583346004898 ABC transporter signature motif; other site 583346004899 Walker B; other site 583346004900 D-loop; other site 583346004901 H-loop/switch region; other site 583346004902 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 583346004903 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 583346004904 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 583346004905 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 583346004906 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 583346004907 Walker A/P-loop; other site 583346004908 ATP binding site [chemical binding]; other site 583346004909 Q-loop/lid; other site 583346004910 ABC transporter signature motif; other site 583346004911 Walker B; other site 583346004912 D-loop; other site 583346004913 H-loop/switch region; other site 583346004914 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 583346004915 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 583346004916 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 583346004917 Condensation domain; Region: Condensation; pfam00668 583346004918 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 583346004919 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 583346004920 acyl-activating enzyme (AAE) consensus motif; other site 583346004921 AMP binding site [chemical binding]; other site 583346004922 Condensation domain; Region: Condensation; pfam00668 583346004923 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 583346004924 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 583346004925 classical (c) SDRs; Region: SDR_c; cd05233 583346004926 NAD(P) binding site [chemical binding]; other site 583346004927 active site 583346004928 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 583346004929 Major Facilitator Superfamily; Region: MFS_1; pfam07690 583346004930 putative substrate translocation pore; other site 583346004931 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 583346004932 The adenylation domain of nonribosomal peptide synthetases (NRPS) similar to mycosubtilin synthase subunit A (MycA); Region: A_NRPS_MycA_like; cd05908 583346004933 acyl-activating enzyme (AAE) consensus motif; other site 583346004934 putative AMP binding site [chemical binding]; other site 583346004935 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 583346004936 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 583346004937 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 583346004938 active site 583346004939 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 583346004940 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 583346004941 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 583346004942 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 583346004943 putative NADP binding site [chemical binding]; other site 583346004944 active site 583346004945 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 583346004946 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 583346004947 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 583346004948 active site 583346004949 FMN-binding domain; Region: FMN_bind; cl01081 583346004950 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 583346004951 Uncharacterized Fe-S center protein [General function prediction only]; Region: COG2768 583346004952 Uncharacterized conserved protein [Function unknown]; Region: COG2006 583346004953 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 583346004954 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 583346004955 NodB motif; other site 583346004956 active site 583346004957 catalytic site [active] 583346004958 metal binding site [ion binding]; metal-binding site 583346004959 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346004960 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346004961 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 583346004962 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 583346004963 putative substrate translocation pore; other site 583346004964 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 583346004965 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 583346004966 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 583346004967 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 583346004968 metal binding site [ion binding]; metal-binding site 583346004969 active site 583346004970 I-site; other site 583346004971 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 583346004972 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 583346004973 oligomer interface [polypeptide binding]; other site 583346004974 metal binding site [ion binding]; metal-binding site 583346004975 metal binding site [ion binding]; metal-binding site 583346004976 putative Cl binding site [ion binding]; other site 583346004977 aspartate ring; other site 583346004978 basic sphincter; other site 583346004979 hydrophobic gate; other site 583346004980 periplasmic entrance; other site 583346004981 M18 Peptidase Aminopeptidase I; Region: M18_API; cd05659 583346004982 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 583346004983 oligomer interface [polypeptide binding]; other site 583346004984 putative active site [active] 583346004985 metal binding site [ion binding]; metal-binding site 583346004986 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 583346004987 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 583346004988 active site 583346004989 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 583346004990 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 583346004991 Membrane protein of unknown function; Region: DUF360; pfam04020 583346004992 Hemerythrin; Region: Hemerythrin; cd12107 583346004993 Fe binding site [ion binding]; other site 583346004994 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 583346004995 aspartate ammonia-lyase; Provisional; Region: PRK13353 583346004996 Aspartase; Region: Aspartase; cd01357 583346004997 active sites [active] 583346004998 tetramer interface [polypeptide binding]; other site 583346004999 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 583346005000 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 583346005001 NAD binding site [chemical binding]; other site 583346005002 homodimer interface [polypeptide binding]; other site 583346005003 active site 583346005004 substrate binding site [chemical binding]; other site 583346005005 arginyl-tRNA synthetase; Reviewed; Region: PRK12451 583346005006 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 583346005007 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 583346005008 active site 583346005009 HIGH motif; other site 583346005010 KMSK motif region; other site 583346005011 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 583346005012 tRNA binding surface [nucleotide binding]; other site 583346005013 anticodon binding site; other site 583346005014 RNase_H superfamily; Region: RNase_H_2; pfam13482 583346005015 active site 583346005016 substrate binding site [chemical binding]; other site 583346005017 FOG: CBS domain [General function prediction only]; Region: COG0517 583346005018 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 583346005019 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 583346005020 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 583346005021 motif II; other site 583346005022 RNase_H superfamily; Region: RNase_H_2; pfam13482 583346005023 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 583346005024 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 583346005025 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 583346005026 G1 box; other site 583346005027 GTP/Mg2+ binding site [chemical binding]; other site 583346005028 G2 box; other site 583346005029 Switch I region; other site 583346005030 Switch II region; other site 583346005031 G3 box; other site 583346005032 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 583346005033 heterotetramer interface [polypeptide binding]; other site 583346005034 active site pocket [active] 583346005035 cleavage site 583346005036 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 583346005037 feedback inhibition sensing region; other site 583346005038 homohexameric interface [polypeptide binding]; other site 583346005039 nucleotide binding site [chemical binding]; other site 583346005040 N-acetyl-L-glutamate binding site [chemical binding]; other site 583346005041 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 583346005042 acetylornithine aminotransferase; Provisional; Region: PRK02627 583346005043 inhibitor-cofactor binding pocket; inhibition site 583346005044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346005045 catalytic residue [active] 583346005046 Ion channel; Region: Ion_trans_2; pfam07885 583346005047 S-ribosylhomocysteinase; Provisional; Region: PRK02260 583346005048 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 583346005049 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 583346005050 putative ATP binding site [chemical binding]; other site 583346005051 putative substrate interface [chemical binding]; other site 583346005052 Predicted amidohydrolase [General function prediction only]; Region: COG0388 583346005053 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 583346005054 putative active site [active] 583346005055 catalytic triad [active] 583346005056 dimer interface [polypeptide binding]; other site 583346005057 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 583346005058 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 583346005059 DXD motif; other site 583346005060 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 583346005061 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 583346005062 active site 583346005063 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 583346005064 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 583346005065 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 583346005066 putative active site [active] 583346005067 HI0933-like protein; Region: HI0933_like; pfam03486 583346005068 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 583346005069 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 583346005070 cytidylate kinase; Provisional; Region: cmk; PRK00023 583346005071 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 583346005072 CMP-binding site; other site 583346005073 The sites determining sugar specificity; other site 583346005074 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed; Region: PRK00087 583346005075 LytB protein; Region: LYTB; cl00507 583346005076 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 583346005077 RNA binding site [nucleotide binding]; other site 583346005078 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 583346005079 RNA binding site [nucleotide binding]; other site 583346005080 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 583346005081 RNA binding site [nucleotide binding]; other site 583346005082 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 583346005083 RNA binding site [nucleotide binding]; other site 583346005084 S-adenosylmethionine decarboxylase proenzyme; Provisional; Region: PRK03124 583346005085 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 583346005086 aspartate aminotransferase; Provisional; Region: PRK07568 583346005087 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 583346005088 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346005089 homodimer interface [polypeptide binding]; other site 583346005090 catalytic residue [active] 583346005091 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 583346005092 Methyltransferase domain; Region: Methyltransf_31; pfam13847 583346005093 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 583346005094 S-adenosylmethionine binding site [chemical binding]; other site 583346005095 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14328 583346005096 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 583346005097 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 583346005098 FeS/SAM binding site; other site 583346005099 TRAM domain; Region: TRAM; pfam01938 583346005100 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 583346005101 MutS domain I; Region: MutS_I; pfam01624 583346005102 MutS domain II; Region: MutS_II; pfam05188 583346005103 MutS domain III; Region: MutS_III; pfam05192 583346005104 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 583346005105 Walker A/P-loop; other site 583346005106 ATP binding site [chemical binding]; other site 583346005107 Q-loop/lid; other site 583346005108 ABC transporter signature motif; other site 583346005109 Walker B; other site 583346005110 D-loop; other site 583346005111 H-loop/switch region; other site 583346005112 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 583346005113 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 583346005114 ATP binding site [chemical binding]; other site 583346005115 Mg2+ binding site [ion binding]; other site 583346005116 G-X-G motif; other site 583346005117 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 583346005118 ATP binding site [chemical binding]; other site 583346005119 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 583346005120 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 583346005121 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 583346005122 bacterial Hfq-like; Region: Hfq; cd01716 583346005123 hexamer interface [polypeptide binding]; other site 583346005124 Sm1 motif; other site 583346005125 RNA binding site [nucleotide binding]; other site 583346005126 Sm2 motif; other site 583346005127 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 583346005128 Aluminium resistance protein; Region: Alum_res; pfam06838 583346005129 LexA repressor; Validated; Region: PRK00215 583346005130 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 583346005131 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 583346005132 Catalytic site [active] 583346005133 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 583346005134 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 583346005135 active site 583346005136 DNA binding site [nucleotide binding] 583346005137 Int/Topo IB signature motif; other site 583346005138 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 583346005139 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 583346005140 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 583346005141 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 583346005142 Uncharacterized conserved protein [Function unknown]; Region: COG1284 583346005143 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 583346005144 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 583346005145 Protein of unknown function (DUF3006); Region: DUF3006; pfam11213 583346005146 stage V sporulation protein AE; Region: spore_V_AE; TIGR02839 583346005147 stage V sporulation protein AD; Provisional; Region: PRK12404 583346005148 Stage V sporulation protein AD (SpoVAD); Region: SpoVAD; pfam07451 583346005149 stage V sporulation protein AC; Region: spore_V_AC; TIGR02838 583346005150 Predicted membrane protein [Function unknown]; Region: COG2323 583346005151 Protein of unknown function (DUF1657); Region: DUF1657; pfam07870 583346005152 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 583346005153 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 583346005154 active site 583346005155 nucleophile elbow; other site 583346005156 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 583346005157 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 583346005158 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 583346005159 nucleotide binding site [chemical binding]; other site 583346005160 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 583346005161 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 583346005162 Ca binding site [ion binding]; other site 583346005163 active site 583346005164 catalytic site [active] 583346005165 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 583346005166 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 583346005167 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 583346005168 G1 box; other site 583346005169 GTP/Mg2+ binding site [chemical binding]; other site 583346005170 Switch I region; other site 583346005171 G2 box; other site 583346005172 G3 box; other site 583346005173 Switch II region; other site 583346005174 G4 box; other site 583346005175 G5 box; other site 583346005176 RecX family; Region: RecX; cl00936 583346005177 Nucleoside recognition; Region: Gate; pfam07670 583346005178 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 583346005179 Nucleoside recognition; Region: Gate; pfam07670 583346005180 FeoA domain; Region: FeoA; pfam04023 583346005181 FeoA domain; Region: FeoA; pfam04023 583346005182 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 583346005183 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 583346005184 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 583346005185 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 583346005186 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 583346005187 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 583346005188 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346005189 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 583346005190 non-specific DNA binding site [nucleotide binding]; other site 583346005191 salt bridge; other site 583346005192 sequence-specific DNA binding site [nucleotide binding]; other site 583346005193 Protein of unknown function (DUF1232); Region: DUF1232; pfam06803 583346005194 purine nucleoside phosphorylase; Provisional; Region: PRK08202 583346005195 homoserine O-succinyltransferase; Provisional; Region: PRK05368 583346005196 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 583346005197 proposed active site lysine [active] 583346005198 conserved cys residue [active] 583346005199 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 583346005200 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 583346005201 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 583346005202 DNA binding residues [nucleotide binding] 583346005203 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 583346005204 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 583346005205 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 583346005206 putative catalytic cysteine [active] 583346005207 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 583346005208 putative active site [active] 583346005209 metal binding site [ion binding]; metal-binding site 583346005210 Penicillinase repressor; Region: Pencillinase_R; pfam03965 583346005211 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 583346005212 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 583346005213 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 583346005214 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 583346005215 putative valine binding site [chemical binding]; other site 583346005216 dimer interface [polypeptide binding]; other site 583346005217 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 583346005218 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 583346005219 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 583346005220 PYR/PP interface [polypeptide binding]; other site 583346005221 dimer interface [polypeptide binding]; other site 583346005222 TPP binding site [chemical binding]; other site 583346005223 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 583346005224 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 583346005225 TPP-binding site [chemical binding]; other site 583346005226 dimer interface [polypeptide binding]; other site 583346005227 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 583346005228 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 583346005229 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 583346005230 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 583346005231 active site 583346005232 dimer interface [polypeptide binding]; other site 583346005233 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 583346005234 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 583346005235 active site 583346005236 FMN binding site [chemical binding]; other site 583346005237 substrate binding site [chemical binding]; other site 583346005238 3Fe-4S cluster binding site [ion binding]; other site 583346005239 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 583346005240 domain interface; other site 583346005241 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 583346005242 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 583346005243 tetramerization interface [polypeptide binding]; other site 583346005244 active site 583346005245 sialate_O-acetylesterase_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: sialate_O-acetylesterase_like2; cd01828 583346005246 active site 583346005247 catalytic triad [active] 583346005248 oxyanion hole [active] 583346005249 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 583346005250 active site 583346005251 multimer interface [polypeptide binding]; other site 583346005252 Predicted membrane protein [Function unknown]; Region: COG1511 583346005253 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 583346005254 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 583346005255 Predicted membrane protein [Function unknown]; Region: COG1511 583346005256 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 583346005257 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 583346005258 Homoserine O-succinyltransferase; Region: HTS; pfam04204 583346005259 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 583346005260 proposed active site lysine [active] 583346005261 conserved cys residue [active] 583346005262 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 583346005263 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 583346005264 homodimer interface [polypeptide binding]; other site 583346005265 substrate-cofactor binding pocket; other site 583346005266 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346005267 catalytic residue [active] 583346005268 S-adenosylmethionine synthetase; Validated; Region: PRK05250 583346005269 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 583346005270 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 583346005271 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 583346005272 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 583346005273 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 583346005274 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 583346005275 thiamine phosphate binding site [chemical binding]; other site 583346005276 active site 583346005277 pyrophosphate binding site [ion binding]; other site 583346005278 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 583346005279 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 583346005280 FeS/SAM binding site; other site 583346005281 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 583346005282 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 583346005283 ThiS interaction site; other site 583346005284 putative active site [active] 583346005285 tetramer interface [polypeptide binding]; other site 583346005286 ThiS-like ubiquitin; Region: ThiS-like; pfam14453 583346005287 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 583346005288 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 583346005289 ATP binding site [chemical binding]; other site 583346005290 substrate interface [chemical binding]; other site 583346005291 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 583346005292 thiS-thiF/thiG interaction site; other site 583346005293 Predicted transcriptional regulators [Transcription]; Region: COG1695 583346005294 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 583346005295 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346005296 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 583346005297 dimer interface [polypeptide binding]; other site 583346005298 phosphorylation site [posttranslational modification] 583346005299 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 583346005300 ATP binding site [chemical binding]; other site 583346005301 G-X-G motif; other site 583346005302 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346005303 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 583346005304 active site 583346005305 phosphorylation site [posttranslational modification] 583346005306 intermolecular recognition site; other site 583346005307 dimerization interface [polypeptide binding]; other site 583346005308 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 583346005309 DNA binding site [nucleotide binding] 583346005310 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 583346005311 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 583346005312 FtsX-like permease family; Region: FtsX; pfam02687 583346005313 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 583346005314 FtsX-like permease family; Region: FtsX; pfam02687 583346005315 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 583346005316 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 583346005317 Walker A/P-loop; other site 583346005318 ATP binding site [chemical binding]; other site 583346005319 Q-loop/lid; other site 583346005320 ABC transporter signature motif; other site 583346005321 Walker B; other site 583346005322 D-loop; other site 583346005323 H-loop/switch region; other site 583346005324 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346005325 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 583346005326 non-specific DNA binding site [nucleotide binding]; other site 583346005327 salt bridge; other site 583346005328 sequence-specific DNA binding site [nucleotide binding]; other site 583346005329 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 583346005330 Catalytic site [active] 583346005331 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 583346005332 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 583346005333 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 583346005334 putative substrate translocation pore; other site 583346005335 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 583346005336 MarR family; Region: MarR_2; pfam12802 583346005337 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 583346005338 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 583346005339 GIY-YIG motif/motif A; other site 583346005340 active site 583346005341 catalytic site [active] 583346005342 putative DNA binding site [nucleotide binding]; other site 583346005343 metal binding site [ion binding]; metal-binding site 583346005344 UvrB/uvrC motif; Region: UVR; pfam02151 583346005345 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 583346005346 phosphoenolpyruvate synthase; Validated; Region: PRK06241 583346005347 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 583346005348 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 583346005349 ArsC family; Region: ArsC; pfam03960 583346005350 catalytic residue [active] 583346005351 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 583346005352 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 583346005353 FtsX-like permease family; Region: FtsX; pfam02687 583346005354 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 583346005355 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 583346005356 FtsX-like permease family; Region: FtsX; pfam02687 583346005357 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 583346005358 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 583346005359 Probable transposase; Region: OrfB_IS605; pfam01385 583346005360 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 583346005361 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 583346005362 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 583346005363 Walker A/P-loop; other site 583346005364 ATP binding site [chemical binding]; other site 583346005365 Q-loop/lid; other site 583346005366 ABC transporter signature motif; other site 583346005367 Walker B; other site 583346005368 D-loop; other site 583346005369 H-loop/switch region; other site 583346005370 Tubulin like; Region: Tubulin_2; pfam13809 583346005371 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 583346005372 metal ion-dependent adhesion site (MIDAS); other site 583346005373 Coat F domain; Region: Coat_F; pfam07875 583346005374 Predicted transcriptional regulators [Transcription]; Region: COG1695 583346005375 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 583346005376 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 583346005377 pentamer interface [polypeptide binding]; other site 583346005378 dodecaamer interface [polypeptide binding]; other site 583346005379 VanZ like family; Region: VanZ; pfam04892 583346005380 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 583346005381 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 583346005382 DNA binding residues [nucleotide binding] 583346005383 Domain of unknown function (DUF4179); Region: DUF4179; pfam13786 583346005384 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 583346005385 dimerization interface [polypeptide binding]; other site 583346005386 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346005387 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 583346005388 dimer interface [polypeptide binding]; other site 583346005389 phosphorylation site [posttranslational modification] 583346005390 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 583346005391 ATP binding site [chemical binding]; other site 583346005392 Mg2+ binding site [ion binding]; other site 583346005393 G-X-G motif; other site 583346005394 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346005395 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 583346005396 active site 583346005397 phosphorylation site [posttranslational modification] 583346005398 intermolecular recognition site; other site 583346005399 dimerization interface [polypeptide binding]; other site 583346005400 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 583346005401 DNA binding site [nucleotide binding] 583346005402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 583346005403 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 583346005404 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346005405 Walker A/P-loop; other site 583346005406 ATP binding site [chemical binding]; other site 583346005407 Q-loop/lid; other site 583346005408 ABC transporter signature motif; other site 583346005409 Walker B; other site 583346005410 D-loop; other site 583346005411 H-loop/switch region; other site 583346005412 aminotransferase; Validated; Region: PRK08175 583346005413 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 583346005414 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 583346005415 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 583346005416 catalytic core [active] 583346005417 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 583346005418 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 583346005419 active site 583346005420 FMN binding site [chemical binding]; other site 583346005421 substrate binding site [chemical binding]; other site 583346005422 putative catalytic residue [active] 583346005423 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 583346005424 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 583346005425 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 583346005426 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 583346005427 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346005428 Walker A/P-loop; other site 583346005429 ATP binding site [chemical binding]; other site 583346005430 Q-loop/lid; other site 583346005431 ABC transporter signature motif; other site 583346005432 Walker B; other site 583346005433 D-loop; other site 583346005434 H-loop/switch region; other site 583346005435 ABC transporter; Region: ABC_tran_2; pfam12848 583346005436 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 583346005437 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 583346005438 Transcriptional regulators [Transcription]; Region: FadR; COG2186 583346005439 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 583346005440 DNA-binding site [nucleotide binding]; DNA binding site 583346005441 FCD domain; Region: FCD; pfam07729 583346005442 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346005443 dimer interface [polypeptide binding]; other site 583346005444 putative CheW interface [polypeptide binding]; other site 583346005445 biotin synthase; Region: bioB; TIGR00433 583346005446 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 583346005447 FeS/SAM binding site; other site 583346005448 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 583346005449 Predicted multitransmembrane protein [Function unknown]; Region: COG5438 583346005450 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 583346005451 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 583346005452 active site 583346005453 metal binding site [ion binding]; metal-binding site 583346005454 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 583346005455 active site 583346005456 metal binding site [ion binding]; metal-binding site 583346005457 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346005458 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346005459 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346005460 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 583346005461 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 583346005462 Spore germination protein; Region: Spore_permease; cl17796 583346005463 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 583346005464 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 583346005465 GeoRSP system radical SAM/SPASM protein; Region: GeoRSP_rSAM; TIGR04303 583346005466 FeS/SAM binding site; other site 583346005467 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 583346005468 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 583346005469 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 583346005470 ABC-ATPase subunit interface; other site 583346005471 dimer interface [polypeptide binding]; other site 583346005472 putative PBP binding regions; other site 583346005473 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 583346005474 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 583346005475 Walker A/P-loop; other site 583346005476 ATP binding site [chemical binding]; other site 583346005477 Q-loop/lid; other site 583346005478 ABC transporter signature motif; other site 583346005479 Walker B; other site 583346005480 D-loop; other site 583346005481 H-loop/switch region; other site 583346005482 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 583346005483 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 583346005484 putative ligand binding residues [chemical binding]; other site 583346005485 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 583346005486 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 583346005487 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 583346005488 dimerization interface [polypeptide binding]; other site 583346005489 putative DNA binding site [nucleotide binding]; other site 583346005490 putative Zn2+ binding site [ion binding]; other site 583346005491 Predicted permeases [General function prediction only]; Region: COG0701 583346005492 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 583346005493 Transposase; Region: HTH_Tnp_1; cl17663 583346005494 HTH-like domain; Region: HTH_21; pfam13276 583346005495 Integrase core domain; Region: rve; pfam00665 583346005496 DDE domain; Region: DDE_Tnp_IS240; pfam13610 583346005497 Integrase core domain; Region: rve_3; pfam13683 583346005498 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 583346005499 Low molecular weight phosphatase family; Region: LMWPc; cd00115 583346005500 active site 583346005501 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 583346005502 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 583346005503 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 583346005504 NodB motif; other site 583346005505 active site 583346005506 catalytic site [active] 583346005507 Zn binding site [ion binding]; other site 583346005508 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346005509 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346005510 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 583346005511 Major Facilitator Superfamily; Region: MFS_1; pfam07690 583346005512 putative substrate translocation pore; other site 583346005513 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 583346005514 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 583346005515 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 583346005516 Transposase; Region: DDE_Tnp_ISL3; pfam01610 583346005517 Transposase; Region: DDE_Tnp_ISL3; pfam01610 583346005518 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 583346005519 HTH-like domain; Region: HTH_21; pfam13276 583346005520 Integrase core domain; Region: rve; pfam00665 583346005521 DDE domain; Region: DDE_Tnp_IS240; pfam13610 583346005522 Integrase core domain; Region: rve_3; pfam13683 583346005523 Transposase; Region: HTH_Tnp_1; cl17663 583346005524 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 583346005525 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 583346005526 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 583346005527 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 583346005528 putative NADP binding site [chemical binding]; other site 583346005529 active site 583346005530 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 583346005531 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 583346005532 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 583346005533 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 583346005534 active site 583346005535 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 583346005536 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 583346005537 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 583346005538 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 583346005539 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 583346005540 active site 583346005541 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 583346005542 Condensation domain; Region: Condensation; pfam00668 583346005543 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 583346005544 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 583346005545 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 583346005546 acyl-activating enzyme (AAE) consensus motif; other site 583346005547 AMP binding site [chemical binding]; other site 583346005548 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 583346005549 The adenylation domain of nonribosomal peptide synthetases (NRPS) similar to mycosubtilin synthase subunit A (MycA); Region: A_NRPS_MycA_like; cd05908 583346005550 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 583346005551 acyl-activating enzyme (AAE) consensus motif; other site 583346005552 putative AMP binding site [chemical binding]; other site 583346005553 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 583346005554 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 583346005555 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 583346005556 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 583346005557 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 583346005558 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 583346005559 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 583346005560 active site 583346005561 DNA binding site [nucleotide binding] 583346005562 Int/Topo IB signature motif; other site 583346005563 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 583346005564 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 583346005565 active site 583346005566 DNA binding site [nucleotide binding] 583346005567 Int/Topo IB signature motif; other site 583346005568 seryl-tRNA synthetase; Provisional; Region: PRK05431 583346005569 Periplasmic binding protein TroA_e. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_e; cd01142 583346005570 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 583346005571 putative ligand binding residues [chemical binding]; other site 583346005572 Helix-turn-helix domain; Region: HTH_17; pfam12728 583346005573 PBP superfamily domain; Region: PBP_like; pfam12727 583346005574 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346005575 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346005576 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 583346005577 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346005578 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346005579 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346005580 Vanadium/alternative nitrogenase delta subunit; Region: AnfG_VnfG; pfam03139 583346005581 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 583346005582 Nitrogenase_VFe_alpha -like: Nitrogenase VFe protein, alpha subunit like. This group contains proteins similar to the alpha subunits of, the VFe protein of the vanadium-dependent (V-) nitrogenase and the FeFe protein of the iron only (Fe-) nitrogenase...; Region: Nitrogenase_VFe_alpha; cd01977 583346005583 nitrogenase iron protein; Region: nifH; TIGR01287 583346005584 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 583346005585 Nucleotide-binding sites [chemical binding]; other site 583346005586 Walker A motif; other site 583346005587 Switch I region of nucleotide binding site; other site 583346005588 Fe4S4 binding sites [ion binding]; other site 583346005589 Switch II region of nucleotide binding site; other site 583346005590 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 583346005591 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 583346005592 FeS/SAM binding site; other site 583346005593 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 583346005594 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 583346005595 non-specific DNA binding site [nucleotide binding]; other site 583346005596 salt bridge; other site 583346005597 sequence-specific DNA binding site [nucleotide binding]; other site 583346005598 Domain of unknown function (DUF955); Region: DUF955; cl01076 583346005599 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 583346005600 Nitrogen regulatory protein P-II; Region: P-II; smart00938 583346005601 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 583346005602 Nitrogen regulatory protein P-II; Region: P-II; smart00938 583346005603 Iron only nitrogenase protein AnfO (AnfO_nitrog); Region: AnfO_nitrog; pfam09582 583346005604 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 583346005605 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 583346005606 active site 583346005607 catalytic residues [active] 583346005608 metal binding site [ion binding]; metal-binding site 583346005609 trans-homoaconitate synthase; Reviewed; Region: aksA; PRK11858 583346005610 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 583346005611 metal binding site [ion binding]; metal-binding site 583346005612 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 583346005613 Coenzyme A binding pocket [chemical binding]; other site 583346005614 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cd00172 583346005615 reactive center loop; other site 583346005616 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 583346005617 Zn2+ binding site [ion binding]; other site 583346005618 Mg2+ binding site [ion binding]; other site 583346005619 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 583346005620 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 583346005621 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 583346005622 FAD binding site [chemical binding]; other site 583346005623 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 583346005624 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 583346005625 THF binding site; other site 583346005626 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 583346005627 substrate binding site [chemical binding]; other site 583346005628 THF binding site; other site 583346005629 zinc-binding site [ion binding]; other site 583346005630 HD domain; Region: HD_4; pfam13328 583346005631 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 583346005632 Part of AAA domain; Region: AAA_19; pfam13245 583346005633 Family description; Region: UvrD_C_2; pfam13538 583346005634 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 583346005635 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 583346005636 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 583346005637 Catalytic site [active] 583346005638 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 583346005639 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 583346005640 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 583346005641 DNA binding residues [nucleotide binding] 583346005642 Putative zinc-finger; Region: zf-HC2; pfam13490 583346005643 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 583346005644 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 583346005645 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 583346005646 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 583346005647 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 583346005648 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 583346005649 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 583346005650 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 583346005651 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 583346005652 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 583346005653 tetramer interface [polypeptide binding]; other site 583346005654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346005655 catalytic residue [active] 583346005656 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 583346005657 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 583346005658 tetramer interface [polypeptide binding]; other site 583346005659 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346005660 catalytic residue [active] 583346005661 glycine cleavage system protein H; Provisional; Region: PRK13380 583346005662 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 583346005663 lipoyl attachment site [posttranslational modification]; other site 583346005664 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 583346005665 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 583346005666 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 583346005667 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 583346005668 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 583346005669 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 583346005670 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 583346005671 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 583346005672 active site 583346005673 Substrate binding site; other site 583346005674 Mg++ binding site; other site 583346005675 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 583346005676 putative trimer interface [polypeptide binding]; other site 583346005677 putative CoA binding site [chemical binding]; other site 583346005678 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 583346005679 GTP-mannose-1-phosphate guanyltransferase (MPG1 transferase), also known as GDP-mannose pyrophosphorylase, is a bifunctional enzyme with both phosphomannose isomerase (PMI) activity and GDP-mannose phosphorylase (GMP) activity. The protein contains an...; Region: MPG1_transferase; cd05805 583346005680 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 583346005681 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 583346005682 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 583346005683 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 583346005684 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 583346005685 FAD binding domain; Region: FAD_binding_4; pfam01565 583346005686 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 583346005687 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 583346005688 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 583346005689 Walker A/P-loop; other site 583346005690 ATP binding site [chemical binding]; other site 583346005691 Q-loop/lid; other site 583346005692 ABC transporter signature motif; other site 583346005693 Walker B; other site 583346005694 D-loop; other site 583346005695 H-loop/switch region; other site 583346005696 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 583346005697 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 583346005698 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346005699 Walker A/P-loop; other site 583346005700 ATP binding site [chemical binding]; other site 583346005701 Q-loop/lid; other site 583346005702 ABC transporter signature motif; other site 583346005703 Walker B; other site 583346005704 D-loop; other site 583346005705 H-loop/switch region; other site 583346005706 Transcriptional regulators [Transcription]; Region: MarR; COG1846 583346005707 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 583346005708 putative DNA binding site [nucleotide binding]; other site 583346005709 putative Zn2+ binding site [ion binding]; other site 583346005710 LysE type translocator; Region: LysE; cl00565 583346005711 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 583346005712 Uncharacterized conserved protein [Function unknown]; Region: COG1284 583346005713 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 583346005714 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 583346005715 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 583346005716 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 583346005717 metal binding site [ion binding]; metal-binding site 583346005718 active site 583346005719 I-site; other site 583346005720 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 583346005721 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 583346005722 motif II; other site 583346005723 Uncharacterized conserved protein [Function unknown]; Region: COG1359 583346005724 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 583346005725 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 583346005726 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 583346005727 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346005728 dimer interface [polypeptide binding]; other site 583346005729 putative CheW interface [polypeptide binding]; other site 583346005730 Cache domain; Region: Cache_1; pfam02743 583346005731 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 583346005732 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 583346005733 CysD dimerization site [polypeptide binding]; other site 583346005734 G1 box; other site 583346005735 putative GEF interaction site [polypeptide binding]; other site 583346005736 GTP/Mg2+ binding site [chemical binding]; other site 583346005737 Switch I region; other site 583346005738 G2 box; other site 583346005739 G3 box; other site 583346005740 Switch II region; other site 583346005741 G4 box; other site 583346005742 G5 box; other site 583346005743 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 583346005744 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 583346005745 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 583346005746 ligand-binding site [chemical binding]; other site 583346005747 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 583346005748 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 583346005749 Active Sites [active] 583346005750 Ferredoxin [Energy production and conversion]; Region: COG1146 583346005751 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 583346005752 adenylylsulfate reductase subunit alpha; Validated; Region: PRK06854 583346005753 L-aspartate oxidase; Provisional; Region: PRK06175 583346005754 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 583346005755 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 583346005756 AAA domain; Region: AAA_18; pfam13238 583346005757 ligand-binding site [chemical binding]; other site 583346005758 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 583346005759 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346005760 Walker A/P-loop; other site 583346005761 ATP binding site [chemical binding]; other site 583346005762 Q-loop/lid; other site 583346005763 ABC transporter signature motif; other site 583346005764 Walker B; other site 583346005765 D-loop; other site 583346005766 H-loop/switch region; other site 583346005767 TOBE domain; Region: TOBE_2; pfam08402 583346005768 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 583346005769 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 583346005770 dimer interface [polypeptide binding]; other site 583346005771 conserved gate region; other site 583346005772 putative PBP binding loops; other site 583346005773 ABC-ATPase subunit interface; other site 583346005774 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 583346005775 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 583346005776 dimer interface [polypeptide binding]; other site 583346005777 conserved gate region; other site 583346005778 putative PBP binding loops; other site 583346005779 ABC-ATPase subunit interface; other site 583346005780 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 583346005781 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 583346005782 substrate binding pocket [chemical binding]; other site 583346005783 membrane-bound complex binding site; other site 583346005784 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 583346005785 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 583346005786 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 583346005787 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 583346005788 thiS-thiF/thiG interaction site; other site 583346005789 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 583346005790 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 583346005791 ATP binding site [chemical binding]; other site 583346005792 substrate interface [chemical binding]; other site 583346005793 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 583346005794 MPN+ (JAMM) motif; other site 583346005795 Zinc-binding site [ion binding]; other site 583346005796 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 583346005797 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 583346005798 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 583346005799 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 583346005800 CPxP motif; other site 583346005801 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 583346005802 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 583346005803 homodimer interface [polypeptide binding]; other site 583346005804 substrate-cofactor binding pocket; other site 583346005805 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346005806 catalytic residue [active] 583346005807 Bacillus thuringiensis toxin; Region: Bac_thur_toxin; pfam01338 583346005808 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 583346005809 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 583346005810 Catalytic site [active] 583346005811 Stage III sporulation protein D; Region: SpoIIID; pfam12116 583346005812 hypothetical protein; Provisional; Region: PRK05802 583346005813 FAD/NAD binding domain (electron transfer subunit) of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate...; Region: DHOD_e_trans_like; cd06192 583346005814 FAD binding pocket [chemical binding]; other site 583346005815 FAD binding motif [chemical binding]; other site 583346005816 phosphate binding motif [ion binding]; other site 583346005817 beta-alpha-beta structure motif; other site 583346005818 NAD binding pocket [chemical binding]; other site 583346005819 Iron coordination center [ion binding]; other site 583346005820 Glucose inhibited division protein A; Region: GIDA; pfam01134 583346005821 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 583346005822 non-specific DNA binding site [nucleotide binding]; other site 583346005823 salt bridge; other site 583346005824 sequence-specific DNA binding site [nucleotide binding]; other site 583346005825 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 583346005826 DNA-binding site [nucleotide binding]; DNA binding site 583346005827 RNA-binding motif; other site 583346005828 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346005829 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 583346005830 non-specific DNA binding site [nucleotide binding]; other site 583346005831 salt bridge; other site 583346005832 sequence-specific DNA binding site [nucleotide binding]; other site 583346005833 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 583346005834 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 583346005835 amidase catalytic site [active] 583346005836 Zn binding residues [ion binding]; other site 583346005837 substrate binding site [chemical binding]; other site 583346005838 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 583346005839 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 583346005840 radical SAM peptide maturase, CXXX-repeat target family; Region: rSAM_Cxxx_rpt; TIGR04115 583346005841 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 583346005842 FeS/SAM binding site; other site 583346005843 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 583346005844 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 583346005845 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 583346005846 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 583346005847 Baseplate J-like protein; Region: Baseplate_J; pfam04865 583346005848 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 583346005849 Bacterial SH3 domain; Region: SH3_3; pfam08239 583346005850 tape measure domain; Region: tape_meas_nterm; TIGR02675 583346005851 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 583346005852 N-acetyl-D-glucosamine binding site [chemical binding]; other site 583346005853 catalytic residue [active] 583346005854 BRO family, N-terminal domain; Region: Bro-N; smart01040 583346005855 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346005856 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 583346005857 non-specific DNA binding site [nucleotide binding]; other site 583346005858 salt bridge; other site 583346005859 sequence-specific DNA binding site [nucleotide binding]; other site 583346005860 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 583346005861 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 583346005862 TPR motif; other site 583346005863 Tetratricopeptide repeat; Region: TPR_12; pfam13424 583346005864 binding surface 583346005865 Phage XkdN-like protein; Region: XkdN; pfam08890 583346005866 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 583346005867 YcfA-like protein; Region: YcfA; pfam07927 583346005868 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 583346005869 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 583346005870 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 583346005871 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 583346005872 Terminase-like family; Region: Terminase_6; pfam03237 583346005873 Phage terminase large subunit; Region: Terminase_3; cl12054 583346005874 Uncharacterized conserved protein [Function unknown]; Region: COG5484 583346005875 Phage terminase small subunit; Region: Phage_terminase; pfam10668 583346005876 NACHT domain; Region: NACHT; pfam05729 583346005877 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 583346005878 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 583346005879 DNA binding residues [nucleotide binding] 583346005880 dimerization interface [polypeptide binding]; other site 583346005881 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 583346005882 HSP70 interaction site [polypeptide binding]; other site 583346005883 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in uncharacterized protein from Archaeoglobus fulgidus (Af0060) and its bacterial homologs; Region: NTP-PPase_Af0060_like; cd11533 583346005884 homodimer interface [polypeptide binding]; other site 583346005885 metal binding site [ion binding]; metal-binding site 583346005886 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 583346005887 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 583346005888 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 583346005889 replicative DNA helicase; Region: DnaB; TIGR00665 583346005890 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 583346005891 Walker A motif; other site 583346005892 ATP binding site [chemical binding]; other site 583346005893 Walker B motif; other site 583346005894 DNA binding loops [nucleotide binding] 583346005895 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 583346005896 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 583346005897 RecT family; Region: RecT; cl04285 583346005898 YopX protein; Region: YopX; pfam09643 583346005899 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346005900 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 583346005901 non-specific DNA binding site [nucleotide binding]; other site 583346005902 salt bridge; other site 583346005903 sequence-specific DNA binding site [nucleotide binding]; other site 583346005904 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 583346005905 sequence-specific DNA binding site [nucleotide binding]; other site 583346005906 salt bridge; other site 583346005907 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346005908 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 583346005909 non-specific DNA binding site [nucleotide binding]; other site 583346005910 salt bridge; other site 583346005911 sequence-specific DNA binding site [nucleotide binding]; other site 583346005912 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346005913 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 583346005914 non-specific DNA binding site [nucleotide binding]; other site 583346005915 salt bridge; other site 583346005916 sequence-specific DNA binding site [nucleotide binding]; other site 583346005917 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346005918 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 583346005919 non-specific DNA binding site [nucleotide binding]; other site 583346005920 salt bridge; other site 583346005921 sequence-specific DNA binding site [nucleotide binding]; other site 583346005922 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 583346005923 Domain of unknown function (DUF4041); Region: DUF4041; pfam13250 583346005924 This entry represents the putative helicase A859L; Region: T5orf172; smart00974 583346005925 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 583346005926 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 583346005927 catalytic residues [active] 583346005928 catalytic nucleophile [active] 583346005929 Presynaptic Site I dimer interface [polypeptide binding]; other site 583346005930 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 583346005931 Synaptic Flat tetramer interface [polypeptide binding]; other site 583346005932 Synaptic Site I dimer interface [polypeptide binding]; other site 583346005933 DNA binding site [nucleotide binding] 583346005934 Recombinase; Region: Recombinase; pfam07508 583346005935 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 583346005936 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 583346005937 Predicted amidohydrolase [General function prediction only]; Region: COG0388 583346005938 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 583346005939 putative active site [active] 583346005940 catalytic triad [active] 583346005941 putative dimer interface [polypeptide binding]; other site 583346005942 EamA-like transporter family; Region: EamA; pfam00892 583346005943 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 583346005944 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 583346005945 nucleophilic elbow; other site 583346005946 catalytic triad; other site 583346005947 LrgB-like family; Region: LrgB; pfam04172 583346005948 LrgA family; Region: LrgA; cl00608 583346005949 Rubrerythrin [Energy production and conversion]; Region: COG1592 583346005950 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 583346005951 binuclear metal center [ion binding]; other site 583346005952 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 583346005953 iron binding site [ion binding]; other site 583346005954 Uncharacterized conserved protein [Function unknown]; Region: COG1432 583346005955 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 583346005956 putative metal binding site [ion binding]; other site 583346005957 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 583346005958 Predicted membrane protein [Function unknown]; Region: COG2246 583346005959 GtrA-like protein; Region: GtrA; pfam04138 583346005960 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 583346005961 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 583346005962 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 583346005963 Thiamine transporter protein (Thia_YuaJ); Region: Thia_YuaJ; pfam09515 583346005964 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 583346005965 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 583346005966 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346005967 dimer interface [polypeptide binding]; other site 583346005968 putative CheW interface [polypeptide binding]; other site 583346005969 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 583346005970 Uncharacterized conserved protein [Function unknown]; Region: COG1284 583346005971 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 583346005972 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 583346005973 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 583346005974 Sensory domain found in PocR; Region: PocR; pfam10114 583346005975 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 583346005976 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346005977 dimer interface [polypeptide binding]; other site 583346005978 putative CheW interface [polypeptide binding]; other site 583346005979 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 583346005980 Na binding site [ion binding]; other site 583346005981 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 583346005982 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346005983 dimer interface [polypeptide binding]; other site 583346005984 putative CheW interface [polypeptide binding]; other site 583346005985 Uncharacterized conserved protein [Function unknown]; Region: COG3287 583346005986 FIST N domain; Region: FIST; smart00897 583346005987 FIST C domain; Region: FIST_C; pfam10442 583346005988 FlxA-like protein; Region: FlxA; pfam14282 583346005989 Putative motility protein; Region: YjfB_motility; pfam14070 583346005990 Protein of unknown function DUF86; Region: DUF86; pfam01934 583346005991 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 583346005992 active site 583346005993 NTP binding site [chemical binding]; other site 583346005994 metal binding triad [ion binding]; metal-binding site 583346005995 antibiotic binding site [chemical binding]; other site 583346005996 OPT oligopeptide transporter protein; Region: OPT; cl14607 583346005997 Predicted permeases [General function prediction only]; Region: COG0679 583346005998 hypothetical protein; Provisional; Region: PRK07475 583346005999 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 583346006000 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 583346006001 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 583346006002 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 583346006003 Fe-S-cluster-containing hydrogenase components 2 [Energy production and conversion]; Region: HycB; COG1142 583346006004 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 583346006005 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 583346006006 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 583346006007 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 583346006008 homotrimer interaction site [polypeptide binding]; other site 583346006009 putative active site [active] 583346006010 C-terminal binding protein (CtBP), D-isomer-specific 2-hydroxyacid dehydrogenases related repressor; Region: CtBP_dh; cd05299 583346006011 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 583346006012 ligand binding site [chemical binding]; other site 583346006013 NAD binding site [chemical binding]; other site 583346006014 catalytic site [active] 583346006015 4-aminobutyrate aminotransferase; Provisional; Region: PRK08117 583346006016 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 583346006017 inhibitor-cofactor binding pocket; inhibition site 583346006018 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346006019 catalytic residue [active] 583346006020 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 583346006021 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 583346006022 active site 583346006023 metal binding site [ion binding]; metal-binding site 583346006024 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 583346006025 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 583346006026 dimer interface [polypeptide binding]; other site 583346006027 conserved gate region; other site 583346006028 putative PBP binding loops; other site 583346006029 ABC-ATPase subunit interface; other site 583346006030 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 583346006031 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 583346006032 dimer interface [polypeptide binding]; other site 583346006033 conserved gate region; other site 583346006034 putative PBP binding loops; other site 583346006035 ABC-ATPase subunit interface; other site 583346006036 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 583346006037 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 583346006038 substrate binding pocket [chemical binding]; other site 583346006039 membrane-bound complex binding site; other site 583346006040 hinge residues; other site 583346006041 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 583346006042 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 583346006043 Walker A/P-loop; other site 583346006044 ATP binding site [chemical binding]; other site 583346006045 Q-loop/lid; other site 583346006046 ABC transporter signature motif; other site 583346006047 Walker B; other site 583346006048 D-loop; other site 583346006049 H-loop/switch region; other site 583346006050 Transcriptional regulators [Transcription]; Region: FadR; COG2186 583346006051 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 583346006052 DNA-binding site [nucleotide binding]; DNA binding site 583346006053 FCD domain; Region: FCD; pfam07729 583346006054 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 583346006055 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 583346006056 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 583346006057 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 583346006058 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 583346006059 active site 583346006060 NTP binding site [chemical binding]; other site 583346006061 metal binding triad [ion binding]; metal-binding site 583346006062 antibiotic binding site [chemical binding]; other site 583346006063 Protein of unknown function DUF86; Region: DUF86; cl01031 583346006064 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 583346006065 active site 583346006066 NTP binding site [chemical binding]; other site 583346006067 metal binding triad [ion binding]; metal-binding site 583346006068 antibiotic binding site [chemical binding]; other site 583346006069 CopC domain; Region: CopC; cl01012 583346006070 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 583346006071 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 583346006072 Leucine-rich repeats; other site 583346006073 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 583346006074 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 583346006075 potential frameshift: common BLAST hit: gi|167038415|ref|YP_001665993.1| transposase, mutator type 583346006076 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 583346006077 Transposase, Mutator family; Region: Transposase_mut; pfam00872 583346006078 MULE transposase domain; Region: MULE; pfam10551 583346006079 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 583346006080 Domain of unknown function (DUF4351); Region: DUF4351; pfam14261 583346006081 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 583346006082 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 583346006083 NAD(P) binding site [chemical binding]; other site 583346006084 active site 583346006085 Transposase, Mutator family; Region: Transposase_mut; pfam00872 583346006086 MULE transposase domain; Region: MULE; pfam10551 583346006087 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 583346006088 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 583346006089 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 583346006090 NAD(P) binding site [chemical binding]; other site 583346006091 homodimer interface [polypeptide binding]; other site 583346006092 substrate binding site [chemical binding]; other site 583346006093 active site 583346006094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 583346006095 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 583346006096 NAD(P) binding site [chemical binding]; other site 583346006097 active site 583346006098 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 583346006099 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 583346006100 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 583346006101 N-terminal catalytic domain of alpha-galactosidase; glycoside hydrolase family 57 (GH57); Region: GH57N_PfGalA_like; cd10794 583346006102 putative active site [active] 583346006103 catalytic site [active] 583346006104 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 583346006105 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 583346006106 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 583346006107 classical (c) SDRs; Region: SDR_c; cd05233 583346006108 NAD(P) binding site [chemical binding]; other site 583346006109 active site 583346006110 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 583346006111 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 583346006112 PYR/PP interface [polypeptide binding]; other site 583346006113 dimer interface [polypeptide binding]; other site 583346006114 TPP binding site [chemical binding]; other site 583346006115 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 583346006116 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 583346006117 TPP-binding site [chemical binding]; other site 583346006118 dimer interface [polypeptide binding]; other site 583346006119 Radical SAM superfamily; Region: Radical_SAM; pfam04055 583346006120 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; cl15377 583346006121 FeS/SAM binding site; other site 583346006122 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 583346006123 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 583346006124 active site 583346006125 Methyltransferase domain; Region: Methyltransf_23; pfam13489 583346006126 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 583346006127 S-adenosylmethionine binding site [chemical binding]; other site 583346006128 Methyltransferase domain; Region: Methyltransf_31; pfam13847 583346006129 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 583346006130 S-adenosylmethionine binding site [chemical binding]; other site 583346006131 Methyltransferase domain; Region: Methyltransf_23; pfam13489 583346006132 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 583346006133 S-adenosylmethionine binding site [chemical binding]; other site 583346006134 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 583346006135 SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat; Region: GT2_SpsF; cd02518 583346006136 ligand binding site; other site 583346006137 pseudaminic acid biosynthesis-associated protein PseG; Region: PseG; TIGR03590 583346006138 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 583346006139 NeuB family; Region: NeuB; pfam03102 583346006140 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 583346006141 NeuB binding interface [polypeptide binding]; other site 583346006142 putative substrate binding site [chemical binding]; other site 583346006143 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 583346006144 flagellin; Provisional; Region: PRK12804 583346006145 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 583346006146 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 583346006147 Flagellar protein FliT; Region: FliT; pfam05400 583346006148 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 583346006149 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 583346006150 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 583346006151 FlaG protein; Region: FlaG; pfam03646 583346006152 Global regulator protein family; Region: CsrA; pfam02599 583346006153 flagellar assembly protein FliW; Provisional; Region: PRK13285 583346006154 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 583346006155 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 583346006156 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 583346006157 four helix bundle protein; Region: TIGR02436 583346006158 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07739 583346006159 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 583346006160 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 583346006161 FlgN protein; Region: FlgN; pfam05130 583346006162 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 583346006163 flagellar motor switch protein; Validated; Region: PRK08119 583346006164 CheC-like family; Region: CheC; pfam04509 583346006165 CheC-like family; Region: CheC; pfam04509 583346006166 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 583346006167 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 583346006168 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 583346006169 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 583346006170 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 583346006171 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 583346006172 active site 583346006173 phosphorylation site [posttranslational modification] 583346006174 intermolecular recognition site; other site 583346006175 dimerization interface [polypeptide binding]; other site 583346006176 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 583346006177 CheC-like family; Region: CheC; pfam04509 583346006178 CheC-like family; Region: CheC; pfam04509 583346006179 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 583346006180 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 583346006181 putative binding surface; other site 583346006182 active site 583346006183 P2 response regulator binding domain; Region: P2; pfam07194 583346006184 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 583346006185 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 583346006186 ATP binding site [chemical binding]; other site 583346006187 Mg2+ binding site [ion binding]; other site 583346006188 G-X-G motif; other site 583346006189 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 583346006190 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 583346006191 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 583346006192 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 583346006193 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 583346006194 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 583346006195 active site 583346006196 phosphorylation site [posttranslational modification] 583346006197 intermolecular recognition site; other site 583346006198 dimerization interface [polypeptide binding]; other site 583346006199 CheB methylesterase; Region: CheB_methylest; pfam01339 583346006200 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13490 583346006201 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 583346006202 Protein of unknown function (DUF342); Region: DUF342; pfam03961 583346006203 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 583346006204 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; cd00449 583346006205 homodimer interface [polypeptide binding]; other site 583346006206 substrate-cofactor binding pocket; other site 583346006207 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346006208 catalytic residue [active] 583346006209 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 583346006210 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 583346006211 motif II; other site 583346006212 Protein of unknown function (DUF1292); Region: DUF1292; pfam06949 583346006213 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 583346006214 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 583346006215 dimer interface [polypeptide binding]; other site 583346006216 PYR/PP interface [polypeptide binding]; other site 583346006217 TPP binding site [chemical binding]; other site 583346006218 substrate binding site [chemical binding]; other site 583346006219 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 583346006220 Domain of unknown function; Region: EKR; smart00890 583346006221 4Fe-4S binding domain; Region: Fer4_6; pfam12837 583346006222 4Fe-4S binding domain; Region: Fer4; pfam00037 583346006223 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 583346006224 TPP-binding site [chemical binding]; other site 583346006225 dimer interface [polypeptide binding]; other site 583346006226 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 583346006227 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 583346006228 active site 583346006229 homodimer interface [polypeptide binding]; other site 583346006230 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 583346006231 DHH family; Region: DHH; pfam01368 583346006232 DHHA1 domain; Region: DHHA1; pfam02272 583346006233 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 583346006234 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 583346006235 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 583346006236 DJ-1 family protein; Region: not_thiJ; TIGR01383 583346006237 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 583346006238 conserved cys residue [active] 583346006239 DNA topoisomerase IV subunit A; Provisional; Region: PRK13979 583346006240 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 583346006241 CAP-like domain; other site 583346006242 active site 583346006243 primary dimer interface [polypeptide binding]; other site 583346006244 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 583346006245 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 583346006246 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 583346006247 ATP binding site [chemical binding]; other site 583346006248 Mg2+ binding site [ion binding]; other site 583346006249 G-X-G motif; other site 583346006250 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 583346006251 anchoring element; other site 583346006252 dimer interface [polypeptide binding]; other site 583346006253 ATP binding site [chemical binding]; other site 583346006254 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 583346006255 active site 583346006256 metal binding site [ion binding]; metal-binding site 583346006257 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 583346006258 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346006259 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 583346006260 dimerization interface [polypeptide binding]; other site 583346006261 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 583346006262 dimer interface [polypeptide binding]; other site 583346006263 phosphorylation site [posttranslational modification] 583346006264 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 583346006265 ATP binding site [chemical binding]; other site 583346006266 Mg2+ binding site [ion binding]; other site 583346006267 G-X-G motif; other site 583346006268 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346006269 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 583346006270 active site 583346006271 phosphorylation site [posttranslational modification] 583346006272 intermolecular recognition site; other site 583346006273 dimerization interface [polypeptide binding]; other site 583346006274 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 583346006275 DNA binding site [nucleotide binding] 583346006276 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 583346006277 Domain of unknown function (DUF4342); Region: DUF4342; pfam14242 583346006278 carbon-monoxide dehydrogenase, catalytic subunit; Region: CO_DH_cata; TIGR01702 583346006279 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 583346006280 ACS interaction site; other site 583346006281 CODH interaction site; other site 583346006282 metal cluster binding site [ion binding]; other site 583346006283 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 583346006284 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 583346006285 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 583346006286 G1 box; other site 583346006287 GTP/Mg2+ binding site [chemical binding]; other site 583346006288 Switch I region; other site 583346006289 G2 box; other site 583346006290 G3 box; other site 583346006291 Switch II region; other site 583346006292 G4 box; other site 583346006293 G5 box; other site 583346006294 Nucleoside recognition; Region: Gate; pfam07670 583346006295 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 583346006296 Nucleoside recognition; Region: Gate; pfam07670 583346006297 FeoA domain; Region: FeoA; pfam04023 583346006298 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 583346006299 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 583346006300 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 583346006301 tartrate dehydrogenase; Region: TTC; TIGR02089 583346006302 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 583346006303 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 583346006304 substrate binding site [chemical binding]; other site 583346006305 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 583346006306 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 583346006307 substrate binding site [chemical binding]; other site 583346006308 ligand binding site [chemical binding]; other site 583346006309 2-isopropylmalate synthase; Validated; Region: PRK00915 583346006310 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 583346006311 active site 583346006312 catalytic residues [active] 583346006313 metal binding site [ion binding]; metal-binding site 583346006314 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 583346006315 Cache domain; Region: Cache_2; cl07034 583346006316 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 583346006317 dimerization interface [polypeptide binding]; other site 583346006318 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 583346006319 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346006320 dimer interface [polypeptide binding]; other site 583346006321 putative CheW interface [polypeptide binding]; other site 583346006322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 583346006323 Predicted secreted protein [Function unknown]; Region: COG4086 583346006324 Protein of unknown function (DUF1002); Region: DUF1002; pfam06207 583346006325 Protein of unknown function (DUF3793); Region: DUF3793; pfam12672 583346006326 flavodoxin; Provisional; Region: PRK05568 583346006327 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 583346006328 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 583346006329 homopentamer interface [polypeptide binding]; other site 583346006330 active site 583346006331 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 583346006332 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 583346006333 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 583346006334 dimerization interface [polypeptide binding]; other site 583346006335 active site 583346006336 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 583346006337 Lumazine binding domain; Region: Lum_binding; pfam00677 583346006338 Lumazine binding domain; Region: Lum_binding; pfam00677 583346006339 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 583346006340 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 583346006341 catalytic motif [active] 583346006342 Zn binding site [ion binding]; other site 583346006343 RibD C-terminal domain; Region: RibD_C; cl17279 583346006344 Bacterial Ig-like domain; Region: Big_5; pfam13205 583346006345 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 583346006346 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 583346006347 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 583346006348 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 583346006349 Walker A/P-loop; other site 583346006350 ATP binding site [chemical binding]; other site 583346006351 Q-loop/lid; other site 583346006352 ABC transporter signature motif; other site 583346006353 Walker B; other site 583346006354 D-loop; other site 583346006355 H-loop/switch region; other site 583346006356 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 583346006357 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 583346006358 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346006359 Walker A/P-loop; other site 583346006360 ATP binding site [chemical binding]; other site 583346006361 Q-loop/lid; other site 583346006362 ABC transporter signature motif; other site 583346006363 Walker B; other site 583346006364 D-loop; other site 583346006365 H-loop/switch region; other site 583346006366 Transcription elongation factor Elf1 like; Region: Elf1; cl02038 583346006367 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 583346006368 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 583346006369 Walker A/P-loop; other site 583346006370 ATP binding site [chemical binding]; other site 583346006371 Q-loop/lid; other site 583346006372 ABC transporter signature motif; other site 583346006373 Walker B; other site 583346006374 D-loop; other site 583346006375 H-loop/switch region; other site 583346006376 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 583346006377 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 583346006378 dimer interface [polypeptide binding]; other site 583346006379 conserved gate region; other site 583346006380 putative PBP binding loops; other site 583346006381 ABC-ATPase subunit interface; other site 583346006382 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 583346006383 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 583346006384 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 583346006385 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 583346006386 homodimer interface [polypeptide binding]; other site 583346006387 substrate-cofactor binding pocket; other site 583346006388 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346006389 catalytic residue [active] 583346006390 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 583346006391 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 583346006392 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 583346006393 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 583346006394 homodimer interface [polypeptide binding]; other site 583346006395 substrate-cofactor binding pocket; other site 583346006396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346006397 catalytic residue [active] 583346006398 Bacterial Ig-like domain; Region: Big_5; pfam13205 583346006399 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 583346006400 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 583346006401 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 583346006402 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 583346006403 Coenzyme A binding pocket [chemical binding]; other site 583346006404 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 583346006405 substrate binding site [chemical binding]; other site 583346006406 THF binding site; other site 583346006407 zinc-binding site [ion binding]; other site 583346006408 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 583346006409 substrate binding site [chemical binding]; other site 583346006410 THF binding site; other site 583346006411 zinc-binding site [ion binding]; other site 583346006412 Transcriptional regulator [Transcription]; Region: LysR; COG0583 583346006413 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 583346006414 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 583346006415 dimerization interface [polypeptide binding]; other site 583346006416 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 583346006417 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 583346006418 homodimer interface [polypeptide binding]; other site 583346006419 substrate-cofactor binding pocket; other site 583346006420 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346006421 catalytic residue [active] 583346006422 Domain of unknown function DUF21; Region: DUF21; pfam01595 583346006423 FOG: CBS domain [General function prediction only]; Region: COG0517 583346006424 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 583346006425 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 583346006426 metal binding site 2 [ion binding]; metal-binding site 583346006427 putative DNA binding helix; other site 583346006428 metal binding site 1 [ion binding]; metal-binding site 583346006429 dimer interface [polypeptide binding]; other site 583346006430 structural Zn2+ binding site [ion binding]; other site 583346006431 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 583346006432 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 583346006433 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 583346006434 RNA binding surface [nucleotide binding]; other site 583346006435 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 583346006436 active site 583346006437 catalytic triad [active] 583346006438 oxyanion hole [active] 583346006439 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 583346006440 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 583346006441 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 583346006442 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346006443 Walker A/P-loop; other site 583346006444 ATP binding site [chemical binding]; other site 583346006445 Q-loop/lid; other site 583346006446 ABC transporter signature motif; other site 583346006447 Walker B; other site 583346006448 D-loop; other site 583346006449 H-loop/switch region; other site 583346006450 Uncharacterized conserved protein [Function unknown]; Region: COG0432 583346006451 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 583346006452 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 583346006453 DNA binding residues [nucleotide binding] 583346006454 drug binding residues [chemical binding]; other site 583346006455 dimer interface [polypeptide binding]; other site 583346006456 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 583346006457 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 583346006458 Amidinotransferase; Region: Amidinotransf; pfam02274 583346006459 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 583346006460 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 583346006461 motif II; other site 583346006462 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 583346006463 RNA polymerase sigma-70 factor, TIGR02954 family; Region: Sig70_famx3 583346006464 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 583346006465 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 583346006466 DNA binding residues [nucleotide binding] 583346006467 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 583346006468 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 583346006469 folate binding site [chemical binding]; other site 583346006470 NADP+ binding site [chemical binding]; other site 583346006471 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 583346006472 nucleotide binding site/active site [active] 583346006473 HIT family signature motif; other site 583346006474 catalytic residue [active] 583346006475 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 583346006476 active site 583346006477 Thymidylate synthase complementing protein; Region: Thy1; pfam02511 583346006478 Thymidylate synthase complementing protein; Region: Thy1; cl03630 583346006479 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 583346006480 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 583346006481 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 583346006482 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 583346006483 Response regulator receiver domain; Region: Response_reg; pfam00072 583346006484 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 583346006485 active site 583346006486 phosphorylation site [posttranslational modification] 583346006487 intermolecular recognition site; other site 583346006488 dimerization interface [polypeptide binding]; other site 583346006489 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 583346006490 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 583346006491 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 583346006492 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 583346006493 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 583346006494 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 583346006495 NAD(P) binding site [chemical binding]; other site 583346006496 catalytic residues [active] 583346006497 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 583346006498 EamA-like transporter family; Region: EamA; pfam00892 583346006499 EamA-like transporter family; Region: EamA; pfam00892 583346006500 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 583346006501 Major Facilitator Superfamily; Region: MFS_1; pfam07690 583346006502 putative substrate translocation pore; other site 583346006503 heat shock protein 90; Provisional; Region: PRK05218 583346006504 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 583346006505 ATP binding site [chemical binding]; other site 583346006506 Mg2+ binding site [ion binding]; other site 583346006507 G-X-G motif; other site 583346006508 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 583346006509 Putative Lactate dehydrogenase and (R)-2-Hydroxyglutarate Dehydrogenase-like proteins, NAD-binding and catalytic domains; Region: HGDH_LDH_like; cd12185 583346006510 putative ligand binding site [chemical binding]; other site 583346006511 putative NAD binding site [chemical binding]; other site 583346006512 catalytic site [active] 583346006513 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346006514 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346006515 HlyD family secretion protein; Region: HlyD; pfam00529 583346006516 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 583346006517 HlyD family secretion protein; Region: HlyD_3; pfam13437 583346006518 ABC-2 type transporter; Region: ABC2_membrane; cl17235 583346006519 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 583346006520 Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]; Region: PflA; COG1180 583346006521 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 583346006522 FeS/SAM binding site; other site 583346006523 hypothetical protein; Provisional; Region: PRK03881 583346006524 The N-terminal domain, an extradiol dioxygenase class III subunit B-like domain, of unknown proteins containing a C-terminal AMMECR1 domain; Region: ED_3B_N_AMMECR1; cd07951 583346006525 AMMECR1; Region: AMMECR1; pfam01871 583346006526 DsrE/DsrF/DrsH-like family; Region: DrsE_2; pfam13686 583346006527 LysE type translocator; Region: LysE; cl00565 583346006528 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 583346006529 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 583346006530 DNA-binding site [nucleotide binding]; DNA binding site 583346006531 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 583346006532 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346006533 homodimer interface [polypeptide binding]; other site 583346006534 catalytic residue [active] 583346006535 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 583346006536 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 583346006537 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 583346006538 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 583346006539 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 583346006540 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 583346006541 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 583346006542 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 583346006543 motif II; other site 583346006544 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 583346006545 Cache domain; Region: Cache_1; pfam02743 583346006546 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 583346006547 dimerization interface [polypeptide binding]; other site 583346006548 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 583346006549 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346006550 dimer interface [polypeptide binding]; other site 583346006551 putative CheW interface [polypeptide binding]; other site 583346006552 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 583346006553 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 583346006554 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 583346006555 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 583346006556 metal binding site [ion binding]; metal-binding site 583346006557 active site 583346006558 I-site; other site 583346006559 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 583346006560 Family description; Region: VCBS; pfam13517 583346006561 Penicillinase repressor; Region: Pencillinase_R; pfam03965 583346006562 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 583346006563 4Fe-4S binding domain; Region: Fer4; cl02805 583346006564 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 583346006565 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346006566 dimer interface [polypeptide binding]; other site 583346006567 putative CheW interface [polypeptide binding]; other site 583346006568 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346006569 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346006570 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346006571 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 583346006572 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 583346006573 metal-binding site [ion binding] 583346006574 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 583346006575 Soluble P-type ATPase [General function prediction only]; Region: COG4087 583346006576 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 583346006577 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 583346006578 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 583346006579 BioY family; Region: BioY; pfam02632 583346006580 Protein of unknown function (DUF1284); Region: DUF1284; cl01419 583346006581 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 583346006582 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 583346006583 dimerization interface [polypeptide binding]; other site 583346006584 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346006585 dimer interface [polypeptide binding]; other site 583346006586 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 583346006587 putative CheW interface [polypeptide binding]; other site 583346006588 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 583346006589 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 583346006590 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346006591 dimer interface [polypeptide binding]; other site 583346006592 putative CheW interface [polypeptide binding]; other site 583346006593 polyphosphate kinase; Provisional; Region: PRK05443 583346006594 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 583346006595 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 583346006596 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 583346006597 putative domain interface [polypeptide binding]; other site 583346006598 putative active site [active] 583346006599 catalytic site [active] 583346006600 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 583346006601 putative domain interface [polypeptide binding]; other site 583346006602 putative active site [active] 583346006603 catalytic site [active] 583346006604 exopolyphosphatase; Region: exo_poly_only; TIGR03706 583346006605 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 583346006606 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 583346006607 exopolyphosphatase; Region: exo_poly_only; TIGR03706 583346006608 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 583346006609 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 583346006610 Zn2+ binding site [ion binding]; other site 583346006611 Mg2+ binding site [ion binding]; other site 583346006612 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 583346006613 H+ Antiporter protein; Region: 2A0121; TIGR00900 583346006614 putative substrate translocation pore; other site 583346006615 bidirectional hydrogenase complex protein HoxU; Validated; Region: PRK07569 583346006616 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 583346006617 catalytic loop [active] 583346006618 iron binding site [ion binding]; other site 583346006619 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 583346006620 4Fe-4S binding domain; Region: Fer4; pfam00037 583346006621 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 583346006622 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 583346006623 Protein of unknown function (DUF503); Region: DUF503; pfam04456 583346006624 homocysteine methyltransferase; Provisional; Region: mmuM; PRK09485 583346006625 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 583346006626 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 583346006627 active site 583346006628 oxyanion hole [active] 583346006629 catalytic triad [active] 583346006630 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 583346006631 putative substrate translocation pore; other site 583346006632 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346006633 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 583346006634 active site 583346006635 phosphorylation site [posttranslational modification] 583346006636 intermolecular recognition site; other site 583346006637 dimerization interface [polypeptide binding]; other site 583346006638 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 583346006639 DNA binding site [nucleotide binding] 583346006640 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 583346006641 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 583346006642 Ligand Binding Site [chemical binding]; other site 583346006643 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 583346006644 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 583346006645 phosphorylation site [posttranslational modification] 583346006646 dimer interface [polypeptide binding]; other site 583346006647 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 583346006648 ATP binding site [chemical binding]; other site 583346006649 Mg2+ binding site [ion binding]; other site 583346006650 G-X-G motif; other site 583346006651 Amino acid permease; Region: AA_permease_2; pfam13520 583346006652 Membrane transport protein; Region: Mem_trans; pfam03547 583346006653 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 583346006654 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 583346006655 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 583346006656 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 583346006657 Members of the SGNH-hydrolase superfamily, 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_like_4; cd04501 583346006658 active site 583346006659 catalytic triad [active] 583346006660 oxyanion hole [active] 583346006661 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 583346006662 E3 interaction surface; other site 583346006663 lipoyl attachment site [posttranslational modification]; other site 583346006664 dihydrolipoamide dehydrogenase; Region: lipoamide_DH; TIGR01350 583346006665 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 583346006666 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 583346006667 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 583346006668 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 583346006669 E3 interaction surface; other site 583346006670 lipoyl attachment site [posttranslational modification]; other site 583346006671 e3 binding domain; Region: E3_binding; pfam02817 583346006672 e3 binding domain; Region: E3_binding; pfam02817 583346006673 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 583346006674 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 583346006675 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 583346006676 alpha subunit interface [polypeptide binding]; other site 583346006677 TPP binding site [chemical binding]; other site 583346006678 heterodimer interface [polypeptide binding]; other site 583346006679 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 583346006680 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 583346006681 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 583346006682 tetramer interface [polypeptide binding]; other site 583346006683 TPP-binding site [chemical binding]; other site 583346006684 heterodimer interface [polypeptide binding]; other site 583346006685 phosphorylation loop region [posttranslational modification] 583346006686 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 583346006687 GAF domain; Region: GAF; pfam01590 583346006688 PAS domain; Region: PAS; smart00091 583346006689 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 583346006690 Walker A motif; other site 583346006691 ATP binding site [chemical binding]; other site 583346006692 Walker B motif; other site 583346006693 arginine finger; other site 583346006694 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 583346006695 lipoyl synthase; Provisional; Region: PRK05481 583346006696 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 583346006697 FeS/SAM binding site; other site 583346006698 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 583346006699 CAAX protease self-immunity; Region: Abi; pfam02517 583346006700 Helix-turn-helix domain; Region: HTH_38; pfam13936 583346006701 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 583346006702 Integrase core domain; Region: rve; pfam00665 583346006703 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 583346006704 non-specific DNA binding site [nucleotide binding]; other site 583346006705 salt bridge; other site 583346006706 sequence-specific DNA binding site [nucleotide binding]; other site 583346006707 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 583346006708 Catalytic NodB homology domain of Streptococcus mutans polysaccharide deacetylase PgdA, Bacillus subtilis YheN, and similar proteins; Region: CE4_SmPgdA_like; cd10944 583346006709 NodB motif; other site 583346006710 active site 583346006711 catalytic site [active] 583346006712 Zn binding site [ion binding]; other site 583346006713 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 583346006714 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 583346006715 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 583346006716 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 583346006717 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 583346006718 Predicted transcriptional regulators [Transcription]; Region: COG1695 583346006719 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 583346006720 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346006721 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346006722 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 583346006723 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 583346006724 Walker A/P-loop; other site 583346006725 ATP binding site [chemical binding]; other site 583346006726 Q-loop/lid; other site 583346006727 ABC transporter signature motif; other site 583346006728 Walker B; other site 583346006729 D-loop; other site 583346006730 H-loop/switch region; other site 583346006731 FtsX-like permease family; Region: FtsX; pfam02687 583346006732 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 583346006733 FtsX-like permease family; Region: FtsX; pfam02687 583346006734 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 583346006735 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 583346006736 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 583346006737 Small acid-soluble spore protein H family; Region: SspH; cl06949 583346006738 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 583346006739 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 583346006740 Coenzyme A binding pocket [chemical binding]; other site 583346006741 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 583346006742 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 583346006743 Walker A/P-loop; other site 583346006744 ATP binding site [chemical binding]; other site 583346006745 Q-loop/lid; other site 583346006746 ABC transporter signature motif; other site 583346006747 Walker B; other site 583346006748 D-loop; other site 583346006749 H-loop/switch region; other site 583346006750 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 583346006751 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 583346006752 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 583346006753 DNA binding residues [nucleotide binding] 583346006754 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 583346006755 metal-binding site [ion binding] 583346006756 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 583346006757 Heavy-metal-associated domain; Region: HMA; pfam00403 583346006758 metal-binding site [ion binding] 583346006759 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 583346006760 Soluble P-type ATPase [General function prediction only]; Region: COG4087 583346006761 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 583346006762 Bacillus subtilis YydB and related proteins, metallophosphatase domain; Region: MPP_YydB; cd07400 583346006763 putative active site [active] 583346006764 putative metal binding site [ion binding]; other site 583346006765 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 583346006766 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 583346006767 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 583346006768 MarR family; Region: MarR_2; pfam12802 583346006769 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 583346006770 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 583346006771 S-adenosylmethionine binding site [chemical binding]; other site 583346006772 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 583346006773 active site 583346006774 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 583346006775 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 583346006776 active site 583346006777 Zn binding site [ion binding]; other site 583346006778 asparagine synthetase B; Provisional; Region: asnB; PRK09431 583346006779 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 583346006780 dimer interface [polypeptide binding]; other site 583346006781 active site 583346006782 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 583346006783 Ligand Binding Site [chemical binding]; other site 583346006784 Molecular Tunnel; other site 583346006785 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 583346006786 HSP70 interaction site [polypeptide binding]; other site 583346006787 Tetratricopeptide repeat; Region: TPR_16; pfam13432 583346006788 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 583346006789 TPR motif; other site 583346006790 binding surface 583346006791 TPR repeat; Region: TPR_11; pfam13414 583346006792 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 583346006793 DNA adenine methylase (dam); Region: dam; TIGR00571 583346006794 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 583346006795 TfoX C-terminal domain; Region: TfoX_C; pfam04994 583346006796 Major Facilitator Superfamily; Region: MFS_1; pfam07690 583346006797 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 583346006798 putative substrate translocation pore; other site 583346006799 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346006800 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 583346006801 dimer interface [polypeptide binding]; other site 583346006802 phosphorylation site [posttranslational modification] 583346006803 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 583346006804 ATP binding site [chemical binding]; other site 583346006805 Mg2+ binding site [ion binding]; other site 583346006806 G-X-G motif; other site 583346006807 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 583346006808 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346006809 Walker A/P-loop; other site 583346006810 ATP binding site [chemical binding]; other site 583346006811 Q-loop/lid; other site 583346006812 ABC transporter signature motif; other site 583346006813 Walker B; other site 583346006814 D-loop; other site 583346006815 H-loop/switch region; other site 583346006816 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346006817 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 583346006818 active site 583346006819 phosphorylation site [posttranslational modification] 583346006820 intermolecular recognition site; other site 583346006821 dimerization interface [polypeptide binding]; other site 583346006822 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 583346006823 DNA binding site [nucleotide binding] 583346006824 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 583346006825 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 583346006826 active site 583346006827 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 583346006828 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 583346006829 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346006830 dimer interface [polypeptide binding]; other site 583346006831 putative CheW interface [polypeptide binding]; other site 583346006832 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 583346006833 4Fe-4S binding domain; Region: Fer4; pfam00037 583346006834 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 583346006835 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 583346006836 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 583346006837 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 583346006838 ABC transporter; Region: ABC_tran_2; pfam12848 583346006839 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 583346006840 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 583346006841 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 583346006842 G1 box; other site 583346006843 GTP/Mg2+ binding site [chemical binding]; other site 583346006844 Switch I region; other site 583346006845 G2 box; other site 583346006846 Switch II region; other site 583346006847 G3 box; other site 583346006848 G4 box; other site 583346006849 G5 box; other site 583346006850 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 583346006851 Aspartase; Region: Aspartase; cd01357 583346006852 active sites [active] 583346006853 tetramer interface [polypeptide binding]; other site 583346006854 YibE/F-like protein; Region: YibE_F; pfam07907 583346006855 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 583346006856 Clp amino terminal domain; Region: Clp_N; pfam02861 583346006857 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 583346006858 Walker A motif; other site 583346006859 ATP binding site [chemical binding]; other site 583346006860 Walker B motif; other site 583346006861 arginine finger; other site 583346006862 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 583346006863 Walker A motif; other site 583346006864 ATP binding site [chemical binding]; other site 583346006865 Walker B motif; other site 583346006866 arginine finger; other site 583346006867 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 583346006868 Uncharacterized conserved protein [Function unknown]; Region: COG2127 583346006869 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 583346006870 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 583346006871 nucleotide binding site [chemical binding]; other site 583346006872 putative NEF/HSP70 interaction site [polypeptide binding]; other site 583346006873 SBD interface [polypeptide binding]; other site 583346006874 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 583346006875 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 583346006876 nucleotide binding site [chemical binding]; other site 583346006877 putative NEF/HSP70 interaction site [polypeptide binding]; other site 583346006878 SBD interface [polypeptide binding]; other site 583346006879 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 583346006880 dimer interface [polypeptide binding]; other site 583346006881 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 583346006882 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 583346006883 rod shape-determining protein MreB; Provisional; Region: PRK13930 583346006884 nucleotide binding site [chemical binding]; other site 583346006885 putative NEF/HSP70 interaction site [polypeptide binding]; other site 583346006886 SBD interface [polypeptide binding]; other site 583346006887 Actin-like ATPase involved in cell morphogenesis [Cell division and chromosome partitioning]; Region: MreB; COG1077 583346006888 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 583346006889 nucleotide binding site [chemical binding]; other site 583346006890 putative NEF/HSP70 interaction site [polypeptide binding]; other site 583346006891 SBD interface [polypeptide binding]; other site 583346006892 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 583346006893 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 583346006894 putative metal binding site [ion binding]; other site 583346006895 KWG Leptospira; Region: KWG; pfam07656 583346006896 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 583346006897 Predicted transcriptional regulators [Transcription]; Region: COG1695 583346006898 Transcriptional regulator PadR-like family; Region: PadR; cl17335 583346006899 EDD domain protein, DegV family; Region: DegV; TIGR00762 583346006900 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 583346006901 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 583346006902 Sulfatase; Region: Sulfatase; pfam00884 583346006903 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346006904 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 583346006905 dimerization interface [polypeptide binding]; other site 583346006906 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 583346006907 dimer interface [polypeptide binding]; other site 583346006908 phosphorylation site [posttranslational modification] 583346006909 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 583346006910 ATP binding site [chemical binding]; other site 583346006911 Mg2+ binding site [ion binding]; other site 583346006912 G-X-G motif; other site 583346006913 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346006914 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 583346006915 active site 583346006916 phosphorylation site [posttranslational modification] 583346006917 intermolecular recognition site; other site 583346006918 dimerization interface [polypeptide binding]; other site 583346006919 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 583346006920 DNA binding site [nucleotide binding] 583346006921 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 583346006922 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346006923 dimer interface [polypeptide binding]; other site 583346006924 putative CheW interface [polypeptide binding]; other site 583346006925 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 583346006926 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 583346006927 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 583346006928 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 583346006929 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 583346006930 S-adenosylmethionine binding site [chemical binding]; other site 583346006931 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 583346006932 acyl-activating enzyme (AAE) consensus motif; other site 583346006933 AMP binding site [chemical binding]; other site 583346006934 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 583346006935 thioester reductase domain; Region: Thioester-redct; TIGR01746 583346006936 extended (e) SDRs, subgroup 1; Region: SDR_e1; cd05235 583346006937 putative NAD(P) binding site [chemical binding]; other site 583346006938 active site 583346006939 putative substrate binding site [chemical binding]; other site 583346006940 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 583346006941 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 583346006942 active site 583346006943 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 583346006944 Condensation domain; Region: Condensation; pfam00668 583346006945 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 583346006946 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 583346006947 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 583346006948 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 583346006949 acyl-CoA synthetase; Validated; Region: PRK09192 583346006950 The adenylation domain of nonribosomal peptide synthetases (NRPS) similar to mycosubtilin synthase subunit A (MycA); Region: A_NRPS_MycA_like; cd05908 583346006951 acyl-activating enzyme (AAE) consensus motif; other site 583346006952 putative AMP binding site [chemical binding]; other site 583346006953 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 583346006954 FtsX-like permease family; Region: FtsX; pfam02687 583346006955 FtsX-like permease family; Region: FtsX; pfam02687 583346006956 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 583346006957 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 583346006958 Walker A/P-loop; other site 583346006959 ATP binding site [chemical binding]; other site 583346006960 Q-loop/lid; other site 583346006961 ABC transporter signature motif; other site 583346006962 Walker B; other site 583346006963 D-loop; other site 583346006964 H-loop/switch region; other site 583346006965 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 583346006966 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 583346006967 HlyD family secretion protein; Region: HlyD_3; pfam13437 583346006968 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 583346006969 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 583346006970 Walker A/P-loop; other site 583346006971 ATP binding site [chemical binding]; other site 583346006972 Q-loop/lid; other site 583346006973 ABC transporter signature motif; other site 583346006974 Walker B; other site 583346006975 D-loop; other site 583346006976 H-loop/switch region; other site 583346006977 Predicted transcriptional regulators [Transcription]; Region: COG1725 583346006978 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 583346006979 DNA-binding site [nucleotide binding]; DNA binding site 583346006980 Transcriptional regulators [Transcription]; Region: MarR; COG1846 583346006981 MarR family; Region: MarR_2; pfam12802 583346006982 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 583346006983 Sterol carrier protein domain; Region: SCP2_2; pfam13530 583346006984 Integrase core domain; Region: rve; pfam00665 583346006985 Integrase core domain; Region: rve_3; pfam13683 583346006986 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 583346006987 Putative amidase domain; Region: Amidase_6; pfam12671 583346006988 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 583346006989 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 583346006990 non-specific DNA binding site [nucleotide binding]; other site 583346006991 salt bridge; other site 583346006992 sequence-specific DNA binding site [nucleotide binding]; other site 583346006993 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 583346006994 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 583346006995 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 583346006996 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 583346006997 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 583346006998 ATP-grasp domain; Region: ATP-grasp_4; cl17255 583346006999 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 583346007000 substrate binding site [chemical binding]; other site 583346007001 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 583346007002 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 583346007003 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 583346007004 catalytic site [active] 583346007005 subunit interface [polypeptide binding]; other site 583346007006 ornithine carbamoyltransferase; Validated; Region: PRK02102 583346007007 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 583346007008 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 583346007009 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 583346007010 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 583346007011 substrate binding pocket [chemical binding]; other site 583346007012 membrane-bound complex binding site; other site 583346007013 hinge residues; other site 583346007014 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 583346007015 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 583346007016 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 583346007017 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 583346007018 ATP binding site [chemical binding]; other site 583346007019 putative Mg++ binding site [ion binding]; other site 583346007020 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 583346007021 nucleotide binding region [chemical binding]; other site 583346007022 ATP-binding site [chemical binding]; other site 583346007023 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 583346007024 HRDC domain; Region: HRDC; pfam00570 583346007025 Transcriptional regulator [Transcription]; Region: LysR; COG0583 583346007026 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 583346007027 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 583346007028 putative dimerization interface [polypeptide binding]; other site 583346007029 Predicted membrane protein [Function unknown]; Region: COG2855 583346007030 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 583346007031 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 583346007032 catalytic residues [active] 583346007033 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 583346007034 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 583346007035 active site 583346007036 metal binding site [ion binding]; metal-binding site 583346007037 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 583346007038 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 583346007039 ATP binding site [chemical binding]; other site 583346007040 Mg2+ binding site [ion binding]; other site 583346007041 G-X-G motif; other site 583346007042 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 583346007043 Protein export membrane protein; Region: SecD_SecF; cl14618 583346007044 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 583346007045 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 583346007046 HlyD family secretion protein; Region: HlyD_3; pfam13437 583346007047 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 583346007048 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346007049 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 583346007050 Predicted transcriptional regulators [Transcription]; Region: COG1695 583346007051 Transcriptional regulator PadR-like family; Region: PadR; cl17335 583346007052 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 583346007053 putative transporter; Provisional; Region: PRK10504 583346007054 putative substrate translocation pore; other site 583346007055 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346007056 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 583346007057 Walker A/P-loop; other site 583346007058 ATP binding site [chemical binding]; other site 583346007059 Q-loop/lid; other site 583346007060 ABC transporter signature motif; other site 583346007061 Walker B; other site 583346007062 D-loop; other site 583346007063 H-loop/switch region; other site 583346007064 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 583346007065 dimer interface [polypeptide binding]; other site 583346007066 conserved gate region; other site 583346007067 putative PBP binding loops; other site 583346007068 ABC-ATPase subunit interface; other site 583346007069 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 583346007070 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 583346007071 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 583346007072 classical (c) SDRs; Region: SDR_c; cd05233 583346007073 NAD(P) binding site [chemical binding]; other site 583346007074 active site 583346007075 spore photoproduct lyase; Region: photo_TT_lyase; cl15393 583346007076 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 583346007077 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 583346007078 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Provisional; Region: PRK07164 583346007079 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 583346007080 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 583346007081 active site 583346007082 ATP binding site [chemical binding]; other site 583346007083 substrate binding site [chemical binding]; other site 583346007084 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 583346007085 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 583346007086 homodimer interface [polypeptide binding]; other site 583346007087 active site 583346007088 FMN binding site [chemical binding]; other site 583346007089 substrate binding site [chemical binding]; other site 583346007090 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 583346007091 phenylhydantoinase; Validated; Region: PRK08323 583346007092 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 583346007093 tetramer interface [polypeptide binding]; other site 583346007094 active site 583346007095 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 583346007096 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 583346007097 Na binding site [ion binding]; other site 583346007098 putative substrate binding site [chemical binding]; other site 583346007099 allantoate amidohydrolase; Reviewed; Region: PRK09290 583346007100 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 583346007101 active site 583346007102 metal binding site [ion binding]; metal-binding site 583346007103 dimer interface [polypeptide binding]; other site 583346007104 hypothetical protein; Provisional; Region: PRK06062 583346007105 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 583346007106 inhibitor-cofactor binding pocket; inhibition site 583346007107 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346007108 catalytic residue [active] 583346007109 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 583346007110 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH6; cd08194 583346007111 putative active site [active] 583346007112 metal binding site [ion binding]; metal-binding site 583346007113 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 583346007114 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 583346007115 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 583346007116 agmatinase; Region: agmatinase; TIGR01230 583346007117 oligomer interface [polypeptide binding]; other site 583346007118 putative active site [active] 583346007119 Mn binding site [ion binding]; other site 583346007120 Malic enzyme, N-terminal domain; Region: malic; pfam00390 583346007121 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 583346007122 putative NAD(P) binding site [chemical binding]; other site 583346007123 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 583346007124 Major Facilitator Superfamily; Region: MFS_1; pfam07690 583346007125 putative substrate translocation pore; other site 583346007126 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 583346007127 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 583346007128 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 583346007129 ribonuclease Z; Reviewed; Region: PRK00055 583346007130 Cache domain; Region: Cache_1; pfam02743 583346007131 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 583346007132 HAMP domain; Region: HAMP; pfam00672 583346007133 dimerization interface [polypeptide binding]; other site 583346007134 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346007135 dimer interface [polypeptide binding]; other site 583346007136 putative CheW interface [polypeptide binding]; other site 583346007137 imidazole glycerol phosphate synthase subunit hisH; Provisional; Region: hisH; CHL00188 583346007138 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 583346007139 predicted active site [active] 583346007140 catalytic triad [active] 583346007141 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 583346007142 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 583346007143 active site 583346007144 multimer interface [polypeptide binding]; other site 583346007145 Uncharacterized conserved protein [Function unknown]; Region: COG3379 583346007146 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 583346007147 Biotin operon repressor [Transcription]; Region: BirA; COG1654 583346007148 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 583346007149 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 583346007150 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 583346007151 isoaspartyl dipeptidase; Provisional; Region: PRK10657 583346007152 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 583346007153 active site 583346007154 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 583346007155 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 583346007156 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 583346007157 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 583346007158 ligand binding site [chemical binding]; other site 583346007159 flexible hinge region; other site 583346007160 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 583346007161 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 583346007162 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 583346007163 Zn2+ binding site [ion binding]; other site 583346007164 Mg2+ binding site [ion binding]; other site 583346007165 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 583346007166 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 583346007167 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 583346007168 active site 583346007169 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 583346007170 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 583346007171 S-adenosylmethionine binding site [chemical binding]; other site 583346007172 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 583346007173 putative metal binding site; other site 583346007174 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 583346007175 binding surface 583346007176 TPR motif; other site 583346007177 Disaggregatase related repeat; Region: Disaggr_repeat; pfam06848 583346007178 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 583346007179 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 583346007180 putative Zn2+ binding site [ion binding]; other site 583346007181 putative DNA binding site [nucleotide binding]; other site 583346007182 dimerization interface [polypeptide binding]; other site 583346007183 H+ Antiporter protein; Region: 2A0121; TIGR00900 583346007184 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 583346007185 putative substrate translocation pore; other site 583346007186 Protein of unknown function (DUF4241); Region: DUF4241; pfam14025 583346007187 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 583346007188 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 583346007189 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 583346007190 Putative amidase domain; Region: Amidase_6; pfam12671 583346007191 Methyltransferase domain; Region: Methyltransf_31; pfam13847 583346007192 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 583346007193 S-adenosylmethionine binding site [chemical binding]; other site 583346007194 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 583346007195 methionine sulfoxide reductase B; Provisional; Region: PRK00222 583346007196 SelR domain; Region: SelR; pfam01641 583346007197 Predicted integral membrane protein [Function unknown]; Region: COG5658 583346007198 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 583346007199 SdpI/YhfL protein family; Region: SdpI; pfam13630 583346007200 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 583346007201 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 583346007202 DNA binding residues [nucleotide binding] 583346007203 dimer interface [polypeptide binding]; other site 583346007204 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 583346007205 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 583346007206 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346007207 active site 583346007208 dimerization interface [polypeptide binding]; other site 583346007209 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 583346007210 DNA binding site [nucleotide binding] 583346007211 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346007212 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 583346007213 dimer interface [polypeptide binding]; other site 583346007214 phosphorylation site [posttranslational modification] 583346007215 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 583346007216 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346007217 Walker A/P-loop; other site 583346007218 ATP binding site [chemical binding]; other site 583346007219 Q-loop/lid; other site 583346007220 Walker B; other site 583346007221 D-loop; other site 583346007222 ABC-2 type transporter; Region: ABC2_membrane; cl17235 583346007223 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 583346007224 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 583346007225 MarR family; Region: MarR_2; pfam12802 583346007226 Amidase; Region: Amidase; cl11426 583346007227 hybrid cluster protein; Provisional; Region: PRK05290 583346007228 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 583346007229 ACS interaction site; other site 583346007230 CODH interaction site; other site 583346007231 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 583346007232 hybrid metal cluster; other site 583346007233 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 583346007234 LemA family; Region: LemA; cl00742 583346007235 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 583346007236 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 583346007237 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346007238 Walker A/P-loop; other site 583346007239 ATP binding site [chemical binding]; other site 583346007240 Q-loop/lid; other site 583346007241 ABC transporter signature motif; other site 583346007242 Walker B; other site 583346007243 D-loop; other site 583346007244 H-loop/switch region; other site 583346007245 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 583346007246 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 583346007247 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346007248 Walker A/P-loop; other site 583346007249 ATP binding site [chemical binding]; other site 583346007250 Q-loop/lid; other site 583346007251 ABC transporter signature motif; other site 583346007252 Walker B; other site 583346007253 D-loop; other site 583346007254 H-loop/switch region; other site 583346007255 Helix-turn-helix domain; Region: HTH_18; pfam12833 583346007256 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 583346007257 Pirin-related protein [General function prediction only]; Region: COG1741 583346007258 Pirin; Region: Pirin; pfam02678 583346007259 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 583346007260 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 583346007261 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 583346007262 TIGR03943 family protein; Region: TIGR03943 583346007263 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 583346007264 Predicted permeases [General function prediction only]; Region: COG0701 583346007265 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 583346007266 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 583346007267 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 583346007268 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 583346007269 TrkA-N domain; Region: TrkA_N; pfam02254 583346007270 TrkA-C domain; Region: TrkA_C; pfam02080 583346007271 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 583346007272 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 583346007273 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 583346007274 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 583346007275 active site 583346007276 FMN binding site [chemical binding]; other site 583346007277 substrate binding site [chemical binding]; other site 583346007278 putative catalytic residue [active] 583346007279 Predicted ATPase of the ABC class; Region: ABC_ATPase; pfam09818 583346007280 Domain of unknown function (DUF1287); Region: DUF1287; pfam06940 583346007281 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346007282 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cd00316 583346007283 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346007284 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346007285 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 583346007286 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 583346007287 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 583346007288 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 583346007289 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 583346007290 Major Facilitator Superfamily; Region: MFS_1; pfam07690 583346007291 putative substrate translocation pore; other site 583346007292 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 583346007293 ligand binding site; other site 583346007294 tetramer interface; other site 583346007295 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 583346007296 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 583346007297 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 583346007298 Substrate binding site; other site 583346007299 metal-binding site 583346007300 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 583346007301 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 583346007302 inhibitor-cofactor binding pocket; inhibition site 583346007303 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346007304 catalytic residue [active] 583346007305 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 583346007306 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 583346007307 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 583346007308 active site 583346007309 homodimer interface [polypeptide binding]; other site 583346007310 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 583346007311 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 583346007312 NeuB family; Region: NeuB; pfam03102 583346007313 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 583346007314 NeuB binding interface [polypeptide binding]; other site 583346007315 putative substrate binding site [chemical binding]; other site 583346007316 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 583346007317 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 583346007318 putative trimer interface [polypeptide binding]; other site 583346007319 putative CoA binding site [chemical binding]; other site 583346007320 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 583346007321 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 583346007322 NAD binding site [chemical binding]; other site 583346007323 substrate binding site [chemical binding]; other site 583346007324 active site 583346007325 putative lipoprotein, rSAM/lipoprotein system; Region: lipo_with_rSAM; TIGR04134 583346007326 putative lipoprotein, rSAM/lipoprotein system; Region: lipo_with_rSAM; TIGR04134 583346007327 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2604 583346007328 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 583346007329 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 583346007330 S-adenosylmethionine binding site [chemical binding]; other site 583346007331 helix_turn_helix, mercury resistance; Region: HTH_MERR; smart00422 583346007332 DNA binding residues [nucleotide binding] 583346007333 Cache domain; Region: Cache_1; pfam02743 583346007334 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 583346007335 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 583346007336 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346007337 dimer interface [polypeptide binding]; other site 583346007338 putative CheW interface [polypeptide binding]; other site 583346007339 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346007340 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 583346007341 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 583346007342 Walker A/P-loop; other site 583346007343 ATP binding site [chemical binding]; other site 583346007344 Q-loop/lid; other site 583346007345 ABC transporter signature motif; other site 583346007346 Walker B; other site 583346007347 D-loop; other site 583346007348 H-loop/switch region; other site 583346007349 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 583346007350 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346007351 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 583346007352 non-specific DNA binding site [nucleotide binding]; other site 583346007353 salt bridge; other site 583346007354 sequence-specific DNA binding site [nucleotide binding]; other site 583346007355 AMMECR1; Region: AMMECR1; cl00911 583346007356 ABC-2 type transporter; Region: ABC2_membrane; cl17235 583346007357 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 583346007358 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 583346007359 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 583346007360 Walker A/P-loop; other site 583346007361 ATP binding site [chemical binding]; other site 583346007362 Q-loop/lid; other site 583346007363 ABC transporter signature motif; other site 583346007364 Walker B; other site 583346007365 D-loop; other site 583346007366 H-loop/switch region; other site 583346007367 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346007368 WHG domain; Region: WHG; pfam13305 583346007369 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346007370 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346007371 WHG domain; Region: WHG; pfam13305 583346007372 drug efflux system protein MdtG; Provisional; Region: PRK09874 583346007373 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 583346007374 putative substrate translocation pore; other site 583346007375 Isochorismatase family; Region: Isochorismatase; pfam00857 583346007376 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 583346007377 catalytic triad [active] 583346007378 conserved cis-peptide bond; other site 583346007379 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 583346007380 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 583346007381 Walker A/P-loop; other site 583346007382 ATP binding site [chemical binding]; other site 583346007383 Q-loop/lid; other site 583346007384 ABC transporter signature motif; other site 583346007385 Walker B; other site 583346007386 D-loop; other site 583346007387 H-loop/switch region; other site 583346007388 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 583346007389 cobalt transport protein CbiM; Provisional; Region: PRK07331 583346007390 cobalt transport protein CbiM; Provisional; Region: PRK11909 583346007391 PDGLE domain; Region: PDGLE; pfam13190 583346007392 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 583346007393 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 583346007394 S-adenosylmethionine binding site [chemical binding]; other site 583346007395 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 583346007396 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine 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_I; cd01990 583346007397 Ligand Binding Site [chemical binding]; other site 583346007398 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 583346007399 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 583346007400 DNA binding residues [nucleotide binding] 583346007401 putative dimer interface [polypeptide binding]; other site 583346007402 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 583346007403 TfoX C-terminal domain; Region: TfoX_C; pfam04994 583346007404 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 583346007405 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 583346007406 intersubunit interface [polypeptide binding]; other site 583346007407 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 583346007408 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 583346007409 intersubunit interface [polypeptide binding]; other site 583346007410 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 583346007411 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 583346007412 Walker A/P-loop; other site 583346007413 ATP binding site [chemical binding]; other site 583346007414 Q-loop/lid; other site 583346007415 ABC transporter signature motif; other site 583346007416 Walker B; other site 583346007417 D-loop; other site 583346007418 H-loop/switch region; other site 583346007419 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 583346007420 ABC-ATPase subunit interface; other site 583346007421 dimer interface [polypeptide binding]; other site 583346007422 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 583346007423 putative PBP binding regions; other site 583346007424 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cd00316 583346007425 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346007426 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cd00316 583346007427 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346007428 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 583346007429 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 583346007430 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 583346007431 active site 583346007432 EDD domain protein, DegV family; Region: DegV; TIGR00762 583346007433 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 583346007434 flavodoxin; Provisional; Region: PRK06242 583346007435 FMN-binding domain; Region: FMN_bind; cl01081 583346007436 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346007437 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346007438 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 583346007439 H+ Antiporter protein; Region: 2A0121; TIGR00900 583346007440 putative substrate translocation pore; other site 583346007441 N-Utilization Substance G (NusG) N terminal (NGN) insert and Lin0431 are part of DUF1312; Region: DUF1312; cd09846 583346007442 MarR family; Region: MarR_2; pfam12802 583346007443 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 583346007444 Coenzyme A binding pocket [chemical binding]; other site 583346007445 HTH-like domain; Region: HTH_21; pfam13276 583346007446 Integrase core domain; Region: rve; pfam00665 583346007447 DDE domain; Region: DDE_Tnp_IS240; pfam13610 583346007448 Integrase core domain; Region: rve_3; pfam13683 583346007449 Transposase; Region: HTH_Tnp_1; cl17663 583346007450 Transcriptional regulators [Transcription]; Region: FadR; COG2186 583346007451 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 583346007452 DNA-binding site [nucleotide binding]; DNA binding site 583346007453 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 583346007454 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 583346007455 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 583346007456 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 583346007457 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 583346007458 substrate binding site [chemical binding]; other site 583346007459 oxyanion hole (OAH) forming residues; other site 583346007460 trimer interface [polypeptide binding]; other site 583346007461 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 583346007462 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 583346007463 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 583346007464 Part of AAA domain; Region: AAA_19; pfam13245 583346007465 Family description; Region: UvrD_C_2; pfam13538 583346007466 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346007467 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346007468 Acyltransferase family; Region: Acyl_transf_3; pfam01757 583346007469 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 583346007470 Low molecular weight phosphatase family; Region: LMWPc; cl00105 583346007471 active site 583346007472 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 583346007473 arsenical-resistance protein; Region: acr3; TIGR00832 583346007474 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 583346007475 dimerization interface [polypeptide binding]; other site 583346007476 putative DNA binding site [nucleotide binding]; other site 583346007477 putative Zn2+ binding site [ion binding]; other site 583346007478 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 583346007479 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 583346007480 trimer interface [polypeptide binding]; other site 583346007481 active site 583346007482 substrate binding site [chemical binding]; other site 583346007483 CoA binding site [chemical binding]; other site 583346007484 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 583346007485 ABC transporter; Region: ABC_tran; pfam00005 583346007486 ABC transporter; Region: ABC_tran_2; pfam12848 583346007487 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 583346007488 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 583346007489 HTH-like domain; Region: HTH_21; pfam13276 583346007490 Integrase core domain; Region: rve; pfam00665 583346007491 DDE domain; Region: DDE_Tnp_IS240; pfam13610 583346007492 Integrase core domain; Region: rve_3; pfam13683 583346007493 Transposase; Region: HTH_Tnp_1; cl17663 583346007494 Phospholipid methyltransferase; Region: PEMT; cl17370 583346007495 Predicted transcriptional regulators [Transcription]; Region: COG1695 583346007496 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 583346007497 Amidohydrolase; Region: Amidohydro_2; pfam04909 583346007498 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 583346007499 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 583346007500 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 583346007501 active site 583346007502 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 583346007503 dimer interface [polypeptide binding]; other site 583346007504 phosphorylation site [posttranslational modification] 583346007505 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 583346007506 ATP binding site [chemical binding]; other site 583346007507 Mg2+ binding site [ion binding]; other site 583346007508 G-X-G motif; other site 583346007509 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346007510 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 583346007511 active site 583346007512 phosphorylation site [posttranslational modification] 583346007513 intermolecular recognition site; other site 583346007514 dimerization interface [polypeptide binding]; other site 583346007515 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 583346007516 DNA binding site [nucleotide binding] 583346007517 SAM (Sterile alpha motif ); Region: SAM_superfamily; cl15755 583346007518 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 583346007519 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 583346007520 DNA binding site [nucleotide binding] 583346007521 sequence specific DNA binding site [nucleotide binding]; other site 583346007522 putative cAMP binding site [chemical binding]; other site 583346007523 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 583346007524 SdpI/YhfL protein family; Region: SdpI; pfam13630 583346007525 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 583346007526 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 583346007527 Putative esterase; Region: Esterase; pfam00756 583346007528 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 583346007529 dimer interface [polypeptide binding]; other site 583346007530 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 583346007531 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 583346007532 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 583346007533 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 583346007534 ATP binding site [chemical binding]; other site 583346007535 putative Mg++ binding site [ion binding]; other site 583346007536 nucleotide binding region [chemical binding]; other site 583346007537 helicase superfamily c-terminal domain; Region: HELICc; smart00490 583346007538 ATP-binding site [chemical binding]; other site 583346007539 C-terminal putative phospholipase D-like domain of uncharacterized prokaryotic HKD family nucleases fused to DEAD/DEAH box helicases; Region: PLDc_C_DEXD_like; cd09126 583346007540 PLD-like domain; Region: PLDc_2; pfam13091 583346007541 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 583346007542 Preprotein binding site; other site 583346007543 SecA binding site; other site 583346007544 potential frameshift: common BLAST hit: gi|134300087|ref|YP_001113583.1| type III restriction enzyme, res subunit 583346007545 Restriction endonuclease [Defense mechanisms]; Region: COG3587 583346007546 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 583346007547 ATP binding site [chemical binding]; other site 583346007548 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 583346007549 salt bridge; other site 583346007550 non-specific DNA binding site [nucleotide binding]; other site 583346007551 sequence-specific DNA binding site [nucleotide binding]; other site 583346007552 Protein of unknown function (DUF3036); Region: DUF3036; pfam11234 583346007553 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 583346007554 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 583346007555 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 583346007556 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346007557 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346007558 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 583346007559 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 583346007560 active site 583346007561 FMN binding site [chemical binding]; other site 583346007562 substrate binding site [chemical binding]; other site 583346007563 putative catalytic residue [active] 583346007564 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 583346007565 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 583346007566 Flavodoxin domain; Region: Flavodoxin_5; cl17428 583346007567 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 583346007568 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 583346007569 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 583346007570 classical (c) SDRs; Region: SDR_c; cd05233 583346007571 NAD(P) binding site [chemical binding]; other site 583346007572 active site 583346007573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 583346007574 B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the...; Region: radical_SAM_B12_BD; cd02068 583346007575 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 583346007576 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 583346007577 FeS/SAM binding site; other site 583346007578 Domain of unknown function (DUF4070); Region: DUF4070; pfam13282 583346007579 Flavodoxin domain; Region: Flavodoxin_5; pfam12724 583346007580 4Fe-4S binding domain; Region: Fer4; pfam00037 583346007581 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 583346007582 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 583346007583 classical (c) SDRs; Region: SDR_c; cd05233 583346007584 NAD(P) binding site [chemical binding]; other site 583346007585 active site 583346007586 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 583346007587 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 583346007588 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 583346007589 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 583346007590 Propionate catabolism activator; Region: PrpR_N; pfam06506 583346007591 PAS domain S-box; Region: sensory_box; TIGR00229 583346007592 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 583346007593 putative active site [active] 583346007594 heme pocket [chemical binding]; other site 583346007595 Radical SAM superfamily; Region: Radical_SAM; pfam04055 583346007596 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 583346007597 FeS/SAM binding site; other site 583346007598 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 583346007599 MarR family; Region: MarR_2; pfam12802 583346007600 MarR family; Region: MarR_2; cl17246 583346007601 benzoate transport; Region: 2A0115; TIGR00895 583346007602 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 583346007603 putative substrate translocation pore; other site 583346007604 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 583346007605 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 583346007606 GIY-YIG motif/motif A; other site 583346007607 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 583346007608 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 583346007609 DNA binding residues [nucleotide binding] 583346007610 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 583346007611 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 583346007612 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 583346007613 Int/Topo IB signature motif; other site 583346007614 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 583346007615 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 583346007616 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 583346007617 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 583346007618 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 583346007619 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 583346007620 ATP binding site [chemical binding]; other site 583346007621 putative Mg++ binding site [ion binding]; other site 583346007622 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 583346007623 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 583346007624 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346007625 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346007626 Methyltransferase domain; Region: Methyltransf_31; pfam13847 583346007627 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 583346007628 S-adenosylmethionine binding site [chemical binding]; other site 583346007629 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 583346007630 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 583346007631 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 583346007632 Walker A/P-loop; other site 583346007633 ATP binding site [chemical binding]; other site 583346007634 Q-loop/lid; other site 583346007635 ABC transporter signature motif; other site 583346007636 Walker B; other site 583346007637 D-loop; other site 583346007638 H-loop/switch region; other site 583346007639 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346007640 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 583346007641 phosphorylation site [posttranslational modification] 583346007642 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 583346007643 ATP binding site [chemical binding]; other site 583346007644 Mg2+ binding site [ion binding]; other site 583346007645 G-X-G motif; other site 583346007646 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346007647 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 583346007648 active site 583346007649 phosphorylation site [posttranslational modification] 583346007650 intermolecular recognition site; other site 583346007651 dimerization interface [polypeptide binding]; other site 583346007652 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 583346007653 DNA binding site [nucleotide binding] 583346007654 aminoglycoside resistance protein; Provisional; Region: PRK13746 583346007655 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 583346007656 active site 583346007657 NTP binding site [chemical binding]; other site 583346007658 metal binding triad [ion binding]; metal-binding site 583346007659 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 583346007660 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 583346007661 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 583346007662 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 583346007663 Coenzyme A binding pocket [chemical binding]; other site 583346007664 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 583346007665 S-adenosylmethionine binding site [chemical binding]; other site 583346007666 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 583346007667 active site 583346007668 NTP binding site [chemical binding]; other site 583346007669 metal binding triad [ion binding]; metal-binding site 583346007670 antibiotic binding site [chemical binding]; other site 583346007671 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 583346007672 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 583346007673 ABC transporter; Region: ABC_tran_2; pfam12848 583346007674 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 583346007675 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 583346007676 H+ Antiporter protein; Region: 2A0121; TIGR00900 583346007677 putative substrate translocation pore; other site 583346007678 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 583346007679 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 583346007680 catalytic residues [active] 583346007681 catalytic nucleophile [active] 583346007682 Recombinase; Region: Recombinase; pfam07508 583346007683 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 583346007684 Recombinase; Region: Recombinase; pfam07508 583346007685 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 583346007686 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 583346007687 catalytic residues [active] 583346007688 catalytic nucleophile [active] 583346007689 Recombinase; Region: Recombinase; pfam07508 583346007690 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 583346007691 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 583346007692 amidase catalytic site [active] 583346007693 Zn binding residues [ion binding]; other site 583346007694 substrate binding site [chemical binding]; other site 583346007695 Sporulation related domain; Region: SPOR; pfam05036 583346007696 Holin family; Region: Phage_holin_4; pfam05105 583346007697 Phage tail protein; Region: Sipho_tail; pfam05709 583346007698 Phage-related protein [Function unknown]; Region: COG5412 583346007699 membrane protein P6; Region: PHA01399 583346007700 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 583346007701 Bacteriophage protein of unknown function (DUF646); Region: DUF646; pfam04883 583346007702 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 583346007703 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 583346007704 oligomerization interface [polypeptide binding]; other site 583346007705 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 583346007706 Phage capsid family; Region: Phage_capsid; pfam05065 583346007707 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 583346007708 oligomer interface [polypeptide binding]; other site 583346007709 active site residues [active] 583346007710 Phage-related protein [Function unknown]; Region: COG4695 583346007711 Phage portal protein; Region: Phage_portal; pfam04860 583346007712 Phage Terminase; Region: Terminase_1; pfam03354 583346007713 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 583346007714 putative active site pocket [active] 583346007715 dimerization interface [polypeptide binding]; other site 583346007716 putative catalytic residue [active] 583346007717 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 583346007718 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 583346007719 DNA methylase; Region: N6_N4_Mtase; pfam01555 583346007720 S-adenosylmethionine synthetase; Provisional; Region: PRK12459 583346007721 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 583346007722 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 583346007723 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 583346007724 Phage terminase, small subunit; Region: Terminase_4; cl01525 583346007725 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 583346007726 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 583346007727 active site 583346007728 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 583346007729 non-specific DNA binding site [nucleotide binding]; other site 583346007730 salt bridge; other site 583346007731 sequence-specific DNA binding site [nucleotide binding]; other site 583346007732 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 583346007733 active site 583346007734 catalytic residues [active] 583346007735 metal binding site [ion binding]; metal-binding site 583346007736 Protein of unknown function (DUF1492); Region: DUF1492; pfam07374 583346007737 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 583346007738 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 583346007739 ATP binding site [chemical binding]; other site 583346007740 putative Mg++ binding site [ion binding]; other site 583346007741 VRR-NUC domain; Region: VRR_NUC; pfam08774 583346007742 Virulence-associated protein E; Region: VirE; pfam05272 583346007743 AntA/AntB antirepressor; Region: AntA; pfam08346 583346007744 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 583346007745 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 583346007746 active site 583346007747 DNA binding site [nucleotide binding] 583346007748 catalytic site [active] 583346007749 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 583346007750 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 583346007751 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 583346007752 DNA binding residues [nucleotide binding] 583346007753 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 583346007754 non-specific DNA binding site [nucleotide binding]; other site 583346007755 salt bridge; other site 583346007756 sequence-specific DNA binding site [nucleotide binding]; other site 583346007757 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 583346007758 non-specific DNA binding site [nucleotide binding]; other site 583346007759 salt bridge; other site 583346007760 sequence-specific DNA binding site [nucleotide binding]; other site 583346007761 Restriction endonuclease MspI; Region: Endonuc-MspI; pfam09208 583346007762 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 583346007763 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 583346007764 cofactor binding site; other site 583346007765 DNA binding site [nucleotide binding] 583346007766 substrate interaction site [chemical binding]; other site 583346007767 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 583346007768 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 583346007769 S-adenosylmethionine binding site [chemical binding]; other site 583346007770 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 583346007771 Sulfatase; Region: Sulfatase; cl17466 583346007772 HTH-like domain; Region: HTH_21; pfam13276 583346007773 Integrase core domain; Region: rve; pfam00665 583346007774 DDE domain; Region: DDE_Tnp_IS240; pfam13610 583346007775 Integrase core domain; Region: rve_3; pfam13683 583346007776 Transposase; Region: HTH_Tnp_1; cl17663 583346007777 Sulfatase; Region: Sulfatase; cl17466 583346007778 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 583346007779 active site 583346007780 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 583346007781 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 583346007782 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 583346007783 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 583346007784 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 583346007785 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 583346007786 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 583346007787 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 583346007788 purine monophosphate binding site [chemical binding]; other site 583346007789 dimer interface [polypeptide binding]; other site 583346007790 putative catalytic residues [active] 583346007791 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 583346007792 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 583346007793 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 583346007794 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 583346007795 active site 583346007796 substrate binding site [chemical binding]; other site 583346007797 cosubstrate binding site; other site 583346007798 catalytic site [active] 583346007799 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 583346007800 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 583346007801 dimerization interface [polypeptide binding]; other site 583346007802 putative ATP binding site [chemical binding]; other site 583346007803 amidophosphoribosyltransferase; Provisional; Region: PRK05793 583346007804 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 583346007805 active site 583346007806 tetramer interface [polypeptide binding]; other site 583346007807 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 583346007808 active site 583346007809 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 583346007810 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 583346007811 ATP binding site [chemical binding]; other site 583346007812 active site 583346007813 substrate binding site [chemical binding]; other site 583346007814 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 583346007815 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 583346007816 active site 583346007817 catalytic triad [active] 583346007818 oxyanion hole [active] 583346007819 Uncharacterized conserved protein [Function unknown]; Region: COG1434 583346007820 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 583346007821 putative active site [active] 583346007822 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 583346007823 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 583346007824 Methyltransferase domain; Region: Methyltransf_26; pfam13659 583346007825 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 583346007826 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 583346007827 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 583346007828 Trypsin; Region: Trypsin; pfam00089 583346007829 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 583346007830 protein binding site [polypeptide binding]; other site 583346007831 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 583346007832 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 583346007833 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 583346007834 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 583346007835 active site 583346007836 substrate-binding site [chemical binding]; other site 583346007837 metal-binding site [ion binding] 583346007838 ATP binding site [chemical binding]; other site 583346007839 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 583346007840 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 583346007841 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 583346007842 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 583346007843 catalytic triad [active] 583346007844 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 583346007845 Clp amino terminal domain; Region: Clp_N; pfam02861 583346007846 Clp amino terminal domain; Region: Clp_N; pfam02861 583346007847 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 583346007848 Walker A motif; other site 583346007849 ATP binding site [chemical binding]; other site 583346007850 Walker B motif; other site 583346007851 arginine finger; other site 583346007852 PA26 p53-induced protein (sestrin); Region: PA26; pfam04636 583346007853 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 583346007854 Walker A motif; other site 583346007855 ATP binding site [chemical binding]; other site 583346007856 Walker B motif; other site 583346007857 arginine finger; other site 583346007858 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 583346007859 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346007860 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 583346007861 non-specific DNA binding site [nucleotide binding]; other site 583346007862 salt bridge; other site 583346007863 sequence-specific DNA binding site [nucleotide binding]; other site 583346007864 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 583346007865 non-specific DNA binding site [nucleotide binding]; other site 583346007866 salt bridge; other site 583346007867 sequence-specific DNA binding site [nucleotide binding]; other site 583346007868 Tetratricopeptide repeat; Region: TPR_12; pfam13424 583346007869 Tetratricopeptide repeat; Region: TPR_12; pfam13424 583346007870 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 583346007871 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 583346007872 Predicted membrane protein [Function unknown]; Region: COG2364 583346007873 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 583346007874 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 583346007875 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 583346007876 Predicted transcriptional regulators [Transcription]; Region: COG1695 583346007877 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 583346007878 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3877 583346007879 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 583346007880 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 583346007881 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 583346007882 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 583346007883 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 583346007884 Soluble P-type ATPase [General function prediction only]; Region: COG4087 583346007885 Uncharacterized family 3; belongs to a superfamily containing the transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this family was previously known as part of DUF156; Region: CsoR-like_DUF156_3; cd10160 583346007886 putative homodimer interface [polypeptide binding]; other site 583346007887 putative homotetramer interface [polypeptide binding]; other site 583346007888 putative metal binding site [ion binding]; other site 583346007889 putative homodimer-homodimer interface [polypeptide binding]; other site 583346007890 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 583346007891 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 583346007892 Walker A motif; other site 583346007893 ATP binding site [chemical binding]; other site 583346007894 Walker B motif; other site 583346007895 arginine finger; other site 583346007896 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; cd05709 583346007897 active site 583346007898 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 583346007899 Rhomboid family; Region: Rhomboid; pfam01694 583346007900 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 583346007901 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 583346007902 Zn2+ binding site [ion binding]; other site 583346007903 Mg2+ binding site [ion binding]; other site 583346007904 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 583346007905 metal binding site 2 [ion binding]; metal-binding site 583346007906 putative DNA binding helix; other site 583346007907 metal binding site 1 [ion binding]; metal-binding site 583346007908 dimer interface [polypeptide binding]; other site 583346007909 structural Zn2+ binding site [ion binding]; other site 583346007910 Predicted membrane protein [Function unknown]; Region: COG1971 583346007911 Protein of unknown function DUF45; Region: DUF45; pfam01863 583346007912 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 583346007913 C-terminal peptidase (prc); Region: prc; TIGR00225 583346007914 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 583346007915 protein binding site [polypeptide binding]; other site 583346007916 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 583346007917 Catalytic dyad [active] 583346007918 Bacterial Ig-like domain; Region: Big_5; pfam13205 583346007919 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346007920 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346007921 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346007922 MarR family; Region: MarR; pfam01047 583346007923 MarR family; Region: MarR_2; cl17246 583346007924 Isochorismatase family; Region: Isochorismatase; pfam00857 583346007925 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 583346007926 catalytic triad [active] 583346007927 conserved cis-peptide bond; other site 583346007928 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 583346007929 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 583346007930 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 583346007931 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 583346007932 Cache domain; Region: Cache_1; pfam02743 583346007933 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 583346007934 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 583346007935 dimerization interface [polypeptide binding]; other site 583346007936 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346007937 dimer interface [polypeptide binding]; other site 583346007938 putative CheW interface [polypeptide binding]; other site 583346007939 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 583346007940 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 583346007941 tetramer interface [polypeptide binding]; other site 583346007942 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346007943 catalytic residue [active] 583346007944 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 583346007945 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 583346007946 putative catalytic cysteine [active] 583346007947 gamma-glutamyl kinase; Provisional; Region: PRK05429 583346007948 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 583346007949 nucleotide binding site [chemical binding]; other site 583346007950 homotetrameric interface [polypeptide binding]; other site 583346007951 putative phosphate binding site [ion binding]; other site 583346007952 putative allosteric binding site; other site 583346007953 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 583346007954 pyrroline-5-carboxylate reductase; Region: PLN02688 583346007955 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 583346007956 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 583346007957 Cl- selectivity filter; other site 583346007958 Cl- binding residues [ion binding]; other site 583346007959 pore gating glutamate residue; other site 583346007960 dimer interface [polypeptide binding]; other site 583346007961 H+/Cl- coupling transport residue; other site 583346007962 TrkA-C domain; Region: TrkA_C; pfam02080 583346007963 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 583346007964 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_12; cd06347 583346007965 putative ligand binding site [chemical binding]; other site 583346007966 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 583346007967 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 583346007968 Walker A/P-loop; other site 583346007969 ATP binding site [chemical binding]; other site 583346007970 Q-loop/lid; other site 583346007971 ABC transporter signature motif; other site 583346007972 Walker B; other site 583346007973 D-loop; other site 583346007974 H-loop/switch region; other site 583346007975 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 583346007976 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 583346007977 Walker A/P-loop; other site 583346007978 ATP binding site [chemical binding]; other site 583346007979 Q-loop/lid; other site 583346007980 ABC transporter signature motif; other site 583346007981 Walker B; other site 583346007982 D-loop; other site 583346007983 H-loop/switch region; other site 583346007984 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 583346007985 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 583346007986 TM-ABC transporter signature motif; other site 583346007987 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 583346007988 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 583346007989 TM-ABC transporter signature motif; other site 583346007990 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 583346007991 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 583346007992 active site 583346007993 catalytic residues [active] 583346007994 metal binding site [ion binding]; metal-binding site 583346007995 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 583346007996 non-specific DNA binding site [nucleotide binding]; other site 583346007997 salt bridge; other site 583346007998 sequence-specific DNA binding site [nucleotide binding]; other site 583346007999 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 583346008000 active site 583346008001 oxyanion hole [active] 583346008002 Bacterial Ig-like domain; Region: Big_5; pfam13205 583346008003 Transposase; Region: HTH_Tnp_1; cl17663 583346008004 HTH-like domain; Region: HTH_21; pfam13276 583346008005 Integrase core domain; Region: rve; pfam00665 583346008006 DDE domain; Region: DDE_Tnp_IS240; pfam13610 583346008007 Integrase core domain; Region: rve_3; pfam13683 583346008008 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 583346008009 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-B; cd09722 583346008010 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 583346008011 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 583346008012 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 583346008013 CRISPR-associated protein Cas5, subtype I-B/HMARI; Region: cas_Cas5h; TIGR02592 583346008014 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 583346008015 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 583346008016 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 583346008017 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 583346008018 Divergent AAA domain; Region: AAA_4; pfam04326 583346008019 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 583346008020 Predicted permeases [General function prediction only]; Region: RarD; COG2962 583346008021 EamA-like transporter family; Region: EamA; cl17759 583346008022 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 583346008023 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 583346008024 DNA binding residues [nucleotide binding] 583346008025 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 583346008026 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 583346008027 Spore germination protein; Region: Spore_permease; cl17796 583346008028 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 583346008029 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 583346008030 Lamin Tail Domain; Region: LTD; pfam00932 583346008031 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 583346008032 Macro domain, 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 ADP-ribose polymerases). Some macro domains recognize poly...; Region: Macro; cl00019 583346008033 ADP-ribose binding site [chemical binding]; other site 583346008034 Superoxide dismutase [Fe]; Provisional; Region: PTZ00078 583346008035 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 583346008036 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 583346008037 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 583346008038 putative PBP binding loops; other site 583346008039 dimer interface [polypeptide binding]; other site 583346008040 ABC-ATPase subunit interface; other site 583346008041 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 583346008042 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 583346008043 dimer interface [polypeptide binding]; other site 583346008044 conserved gate region; other site 583346008045 putative PBP binding loops; other site 583346008046 ABC-ATPase subunit interface; other site 583346008047 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 583346008048 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 583346008049 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 583346008050 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346008051 Walker A/P-loop; other site 583346008052 ATP binding site [chemical binding]; other site 583346008053 Q-loop/lid; other site 583346008054 ABC transporter signature motif; other site 583346008055 Walker B; other site 583346008056 D-loop; other site 583346008057 H-loop/switch region; other site 583346008058 TOBE domain; Region: TOBE_2; pfam08402 583346008059 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 583346008060 non-specific DNA binding site [nucleotide binding]; other site 583346008061 salt bridge; other site 583346008062 sequence-specific DNA binding site [nucleotide binding]; other site 583346008063 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 583346008064 intersubunit interface [polypeptide binding]; other site 583346008065 active site 583346008066 catalytic residue [active] 583346008067 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 583346008068 NMT1/THI5 like; Region: NMT1; pfam09084 583346008069 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 583346008070 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 583346008071 dimer interface [polypeptide binding]; other site 583346008072 conserved gate region; other site 583346008073 putative PBP binding loops; other site 583346008074 ABC-ATPase subunit interface; other site 583346008075 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346008076 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346008077 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cd00562 583346008078 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346008079 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346008080 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346008081 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 583346008082 Cache domain; Region: Cache_1; pfam02743 583346008083 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 583346008084 dimerization interface [polypeptide binding]; other site 583346008085 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 583346008086 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346008087 dimer interface [polypeptide binding]; other site 583346008088 putative CheW interface [polypeptide binding]; other site 583346008089 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 583346008090 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 583346008091 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 583346008092 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 583346008093 putative active site [active] 583346008094 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 583346008095 active site 583346008096 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 583346008097 Rubredoxin [Energy production and conversion]; Region: COG1773 583346008098 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 583346008099 iron binding site [ion binding]; other site 583346008100 Integral membrane protein TerC family; Region: TerC; cl10468 583346008101 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 583346008102 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 583346008103 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 583346008104 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 583346008105 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 583346008106 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 583346008107 dimer interface [polypeptide binding]; other site 583346008108 conserved gate region; other site 583346008109 putative PBP binding loops; other site 583346008110 ABC-ATPase subunit interface; other site 583346008111 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 583346008112 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 583346008113 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 583346008114 Walker A/P-loop; other site 583346008115 ATP binding site [chemical binding]; other site 583346008116 Q-loop/lid; other site 583346008117 ABC transporter signature motif; other site 583346008118 Walker B; other site 583346008119 D-loop; other site 583346008120 H-loop/switch region; other site 583346008121 FOG: CBS domain [General function prediction only]; Region: COG0517 583346008122 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 583346008123 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 583346008124 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 583346008125 DNA-binding site [nucleotide binding]; DNA binding site 583346008126 TrkA-C domain; Region: TrkA_C; pfam02080 583346008127 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 583346008128 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 583346008129 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 583346008130 Bacillus haemolytic enterotoxin (HBL); Region: Bacillus_HBL; pfam05791 583346008131 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 583346008132 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 583346008133 active site 583346008134 phosphorylation site [posttranslational modification] 583346008135 intermolecular recognition site; other site 583346008136 dimerization interface [polypeptide binding]; other site 583346008137 LytTr DNA-binding domain; Region: LytTR; smart00850 583346008138 hypothetical protein; Provisional; Region: PRK11479 583346008139 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 583346008140 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 583346008141 Histidine kinase; Region: His_kinase; pfam06580 583346008142 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 583346008143 ATP binding site [chemical binding]; other site 583346008144 Mg2+ binding site [ion binding]; other site 583346008145 G-X-G motif; other site 583346008146 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 583346008147 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 583346008148 putative dimer interface [polypeptide binding]; other site 583346008149 MutS domain III; Region: MutS_III; cl17822 583346008150 ATP-binding cassette domain of MutS-like homolog; Region: ABC_MutS-like; cd03283 583346008151 Walker A/P-loop; other site 583346008152 ATP binding site [chemical binding]; other site 583346008153 Q-loop/lid; other site 583346008154 ABC transporter signature motif; other site 583346008155 Walker B; other site 583346008156 D-loop; other site 583346008157 H-loop/switch region; other site 583346008158 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 583346008159 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 583346008160 Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus; Region: RNase_HI_bacteria_HBD; cd09277 583346008161 RNA/DNA hybrid binding site [nucleotide binding]; other site 583346008162 active site 583346008163 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 583346008164 S-adenosylmethionine binding site [chemical binding]; other site 583346008165 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 583346008166 Peptidase family M50; Region: Peptidase_M50; pfam02163 583346008167 active site 583346008168 putative substrate binding region [chemical binding]; other site 583346008169 Exopolysaccharide biosynthesis protein related to N-acetylglucosamine-1-phosphodiester alpha-N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: EpsL; COG4632 583346008170 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 583346008171 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 583346008172 putative active site [active] 583346008173 PhoH-like protein; Region: PhoH; pfam02562 583346008174 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 583346008175 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 583346008176 Walker A/P-loop; other site 583346008177 ATP binding site [chemical binding]; other site 583346008178 Q-loop/lid; other site 583346008179 ABC transporter signature motif; other site 583346008180 Walker B; other site 583346008181 D-loop; other site 583346008182 H-loop/switch region; other site 583346008183 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 583346008184 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 583346008185 Protein of unknown function (DUF554); Region: DUF554; pfam04474 583346008186 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 583346008187 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 583346008188 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346008189 dimer interface [polypeptide binding]; other site 583346008190 putative CheW interface [polypeptide binding]; other site 583346008191 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 583346008192 metal binding site [ion binding]; metal-binding site 583346008193 active site 583346008194 I-site; other site 583346008195 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 583346008196 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 583346008197 AzlC protein; Region: AzlC; cl00570 583346008198 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 583346008199 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 583346008200 non-specific DNA binding site [nucleotide binding]; other site 583346008201 salt bridge; other site 583346008202 sequence-specific DNA binding site [nucleotide binding]; other site 583346008203 Cupin domain; Region: Cupin_2; pfam07883 583346008204 flavodoxin; Provisional; Region: PRK06242 583346008205 Flavin Reductases; Region: FlaRed; cl00801 583346008206 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 583346008207 sequence-specific DNA binding site [nucleotide binding]; other site 583346008208 salt bridge; other site 583346008209 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cd00599 583346008210 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 583346008211 active site 583346008212 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 583346008213 Tetratricopeptide repeat; Region: TPR_16; pfam13432 583346008214 A short protein domain of unknown function; Region: IDEAL; smart00914 583346008215 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 583346008216 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 583346008217 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 583346008218 S-adenosylmethionine binding site [chemical binding]; other site 583346008219 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 583346008220 Domain of unknown function DUF21; Region: DUF21; pfam01595 583346008221 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 583346008222 Transporter associated domain; Region: CorC_HlyC; pfam03471 583346008223 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 583346008224 Protein of unknown function (DUF3231); Region: DUF3231; pfam11553 583346008225 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 583346008226 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 583346008227 active site 583346008228 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 583346008229 Predicted membrane protein [Function unknown]; Region: COG3212 583346008230 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 583346008231 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 583346008232 Spore germination protein; Region: Spore_permease; cl17796 583346008233 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 583346008234 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346008235 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346008236 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 583346008237 Major Facilitator Superfamily; Region: MFS_1; pfam07690 583346008238 putative substrate translocation pore; other site 583346008239 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 583346008240 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 583346008241 Catalytic site [active] 583346008242 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 583346008243 active site 1 [active] 583346008244 dimer interface [polypeptide binding]; other site 583346008245 hexamer interface [polypeptide binding]; other site 583346008246 active site 2 [active] 583346008247 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 583346008248 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 583346008249 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 583346008250 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 583346008251 catalytic residues [active] 583346008252 catalytic nucleophile [active] 583346008253 Presynaptic Site I dimer interface [polypeptide binding]; other site 583346008254 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 583346008255 Synaptic Flat tetramer interface [polypeptide binding]; other site 583346008256 Synaptic Site I dimer interface [polypeptide binding]; other site 583346008257 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 583346008258 Cysteine-rich VLP; Region: Cys_rich_VLP; pfam14194 583346008259 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 583346008260 non-specific DNA binding site [nucleotide binding]; other site 583346008261 salt bridge; other site 583346008262 sequence-specific DNA binding site [nucleotide binding]; other site 583346008263 hypothetical protein; Provisional; Region: PRK06771 583346008264 Transposase IS200 like; Region: Y1_Tnp; pfam01797 583346008265 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 583346008266 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 583346008267 catalytic residues [active] 583346008268 Recombinase; Region: Recombinase; pfam07508 583346008269 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 583346008270 HTH-like domain; Region: HTH_21; pfam13276 583346008271 Integrase core domain; Region: rve; pfam00665 583346008272 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 583346008273 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 583346008274 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346008275 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 583346008276 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 583346008277 sequence-specific DNA binding site [nucleotide binding]; other site 583346008278 salt bridge; other site 583346008279 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346008280 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346008281 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346008282 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 583346008283 dimer interface [polypeptide binding]; other site 583346008284 catalytic triad [active] 583346008285 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 583346008286 DNA-binding site [nucleotide binding]; DNA binding site 583346008287 RNA-binding motif; other site 583346008288 MarR family; Region: MarR_2; cl17246 583346008289 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 583346008290 Major Facilitator Superfamily; Region: MFS_1; pfam07690 583346008291 putative substrate translocation pore; other site 583346008292 FOG: CBS domain [General function prediction only]; Region: COG0517 583346008293 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_23; cd04636 583346008294 Copper/zinc superoxide dismutase (SODC); Region: Sod_Cu; pfam00080 583346008295 active site 583346008296 Cu2+ binding site [ion binding]; other site 583346008297 E-class dimer interface [polypeptide binding]; other site 583346008298 Zn2+ binding site [ion binding]; other site 583346008299 P-class dimer interface [polypeptide binding]; other site 583346008300 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 583346008301 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 583346008302 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 583346008303 DNA-binding site [nucleotide binding]; DNA binding site 583346008304 RNA-binding motif; other site 583346008305 Serine hydrolase; Region: Ser_hydrolase; cl17834 583346008306 hypothetical protein; Provisional; Region: PRK06771 583346008307 Phage terminase small subunit; Region: Phage_terminase; pfam10668 583346008308 Terminase small subunit; Region: Terminase_2; pfam03592 583346008309 beta-lactamase TEM; Provisional; Region: PRK15442 583346008310 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 583346008311 Integrase core domain; Region: rve; pfam00665 583346008312 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 583346008313 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346008314 Walker A/P-loop; other site 583346008315 ATP binding site [chemical binding]; other site 583346008316 Q-loop/lid; other site 583346008317 ABC transporter signature motif; other site 583346008318 Walker B; other site 583346008319 D-loop; other site 583346008320 H-loop/switch region; other site 583346008321 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 583346008322 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 583346008323 ABC-ATPase subunit interface; other site 583346008324 dimer interface [polypeptide binding]; other site 583346008325 putative PBP binding regions; other site 583346008326 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 583346008327 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 583346008328 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 583346008329 putative dimer interface [polypeptide binding]; other site 583346008330 active site pocket [active] 583346008331 putative cataytic base [active] 583346008332 precorrin-2 dehydrogenase; Provisional; Region: PRK05562 583346008333 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 583346008334 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 583346008335 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 583346008336 dimer interface [polypeptide binding]; other site 583346008337 active site 583346008338 ADP-ribose binding site [chemical binding]; other site 583346008339 nudix motif; other site 583346008340 metal binding site [ion binding]; metal-binding site 583346008341 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 583346008342 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 583346008343 DNA-binding site [nucleotide binding]; DNA binding site 583346008344 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 583346008345 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346008346 homodimer interface [polypeptide binding]; other site 583346008347 catalytic residue [active] 583346008348 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 583346008349 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 583346008350 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 583346008351 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 583346008352 ATP-grasp domain; Region: ATP-grasp_4; cl17255 583346008353 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 583346008354 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 583346008355 Beta-Casp domain; Region: Beta-Casp; smart01027 583346008356 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 583346008357 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 583346008358 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 583346008359 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 583346008360 thiamine phosphate binding site [chemical binding]; other site 583346008361 active site 583346008362 pyrophosphate binding site [ion binding]; other site 583346008363 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 583346008364 substrate binding site [chemical binding]; other site 583346008365 multimerization interface [polypeptide binding]; other site 583346008366 ATP binding site [chemical binding]; other site 583346008367 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 583346008368 dimer interface [polypeptide binding]; other site 583346008369 substrate binding site [chemical binding]; other site 583346008370 ATP binding site [chemical binding]; other site 583346008371 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 583346008372 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 583346008373 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 583346008374 Int/Topo IB signature motif; other site 583346008375 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 583346008376 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]; Region: PorA; COG0674 583346008377 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 583346008378 Double zinc ribbon; Region: DZR; pfam12773 583346008379 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346008380 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 583346008381 sequence-specific DNA binding site [nucleotide binding]; other site 583346008382 salt bridge; other site 583346008383 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 583346008384 Domain of unknown function (DUF932); Region: DUF932; pfam06067 583346008385 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346008386 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346008387 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346008388 Tetratricopeptide repeat; Region: TPR_16; pfam13432 583346008389 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 583346008390 Transposase; Region: HTH_Tnp_1; cl17663 583346008391 HTH-like domain; Region: HTH_21; pfam13276 583346008392 Integrase core domain; Region: rve; pfam00665 583346008393 DDE domain; Region: DDE_Tnp_IS240; pfam13610 583346008394 Integrase core domain; Region: rve_3; pfam13683 583346008395 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 583346008396 Methyltransferase domain; Region: Methyltransf_26; pfam13659 583346008397 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 583346008398 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 583346008399 Protein of unknown function (DUF3990); Region: DUF3990; pfam13151 583346008400 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 583346008401 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 583346008402 Int/Topo IB signature motif; other site 583346008403 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 583346008404 putative active site [active] 583346008405 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 583346008406 non-specific DNA binding site [nucleotide binding]; other site 583346008407 salt bridge; other site 583346008408 sequence-specific DNA binding site [nucleotide binding]; other site 583346008409 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 583346008410 non-specific DNA binding site [nucleotide binding]; other site 583346008411 salt bridge; other site 583346008412 sequence-specific DNA binding site [nucleotide binding]; other site 583346008413 Uncharacterized conserved protein [Function unknown]; Region: COG4983 583346008414 D5 N terminal like; Region: D5_N; smart00885 583346008415 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 583346008416 Helix-turn-helix domain; Region: HTH_17; cl17695 583346008417 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 583346008418 Phage capsid family; Region: Phage_capsid; pfam05065 583346008419 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 583346008420 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 583346008421 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 583346008422 DNA binding residues [nucleotide binding] 583346008423 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 583346008424 DNA-binding site [nucleotide binding]; DNA binding site 583346008425 RNA-binding motif; other site 583346008426 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 583346008427 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 583346008428 dimer interface [polypeptide binding]; other site 583346008429 active site 583346008430 metal binding site [ion binding]; metal-binding site 583346008431 Domain of unknown function (DUF4309); Region: DUF4309; pfam14172 583346008432 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 583346008433 Transposase; Region: DEDD_Tnp_IS110; pfam01548 583346008434 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 583346008435 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 583346008436 4Fe-4S binding domain; Region: Fer4_5; pfam12801 583346008437 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 583346008438 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 583346008439 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 583346008440 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 583346008441 dimer interface [polypeptide binding]; other site 583346008442 active site 583346008443 metal binding site [ion binding]; metal-binding site 583346008444 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 583346008445 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 583346008446 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 583346008447 putative active site [active] 583346008448 putative NTP binding site [chemical binding]; other site 583346008449 putative nucleic acid binding site [nucleotide binding]; other site 583346008450 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 583346008451 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 583346008452 diiron binding motif [ion binding]; other site 583346008453 maltose O-acetyltransferase; Provisional; Region: PRK10092 583346008454 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 583346008455 active site 583346008456 substrate binding site [chemical binding]; other site 583346008457 trimer interface [polypeptide binding]; other site 583346008458 CoA binding site [chemical binding]; other site 583346008459 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 583346008460 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 583346008461 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 583346008462 MarR family; Region: MarR_2; pfam12802 583346008463 Uncharacterized ArCR, COG2043; Region: DUF169; pfam02596 583346008464 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 583346008465 pyruvate ferredoxin oxidoreductase subunit beta; Provisional; Region: PRK11865 583346008466 Thiamine pyrophosphate (TPP family), PFOR porB-like subfamily, TPP-binding module; composed of proteins similar to the beta subunit (porB) of the Helicobacter pylori four-subunit pyruvate ferredoxin oxidoreductase (PFOR), which are also found in archaea...; Region: TPP_PFOR_porB_like; cd03376 583346008467 TPP-binding site [chemical binding]; other site 583346008468 putative dimer interface [polypeptide binding]; other site 583346008469 pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed; Region: porA; PRK09622 583346008470 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 583346008471 dimer interface [polypeptide binding]; other site 583346008472 PYR/PP interface [polypeptide binding]; other site 583346008473 TPP binding site [chemical binding]; other site 583346008474 substrate binding site [chemical binding]; other site 583346008475 2-oxoacid:acceptor oxidoreductase, delta subunit, pyruvate/2-ketoisovalerate family; Region: PorD_KorD; TIGR02179 583346008476 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 583346008477 2-oxoacid:acceptor oxidoreductase, gamma subunit, pyruvate/2-ketoisovalerate family; Region: PorC_KorC; TIGR02175 583346008478 pyruvate/ketoisovalerate ferredoxin oxidoreductase subunit gamma; Provisional; Region: PRK14029 583346008479 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 583346008480 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 583346008481 dimer interface [polypeptide binding]; other site 583346008482 active site 583346008483 metal binding site [ion binding]; metal-binding site 583346008484 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 583346008485 4Fe-4S binding domain; Region: Fer4_6; pfam12837 583346008486 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 583346008487 glycyl radical enzyme, PFL2/glycerol dehydratase family; Region: PFL2-3; TIGR01774 583346008488 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 583346008489 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346008490 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 583346008491 non-specific DNA binding site [nucleotide binding]; other site 583346008492 salt bridge; other site 583346008493 sequence-specific DNA binding site [nucleotide binding]; other site 583346008494 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346008495 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 583346008496 dimer interface [polypeptide binding]; other site 583346008497 phosphorylation site [posttranslational modification] 583346008498 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 583346008499 ATP binding site [chemical binding]; other site 583346008500 Mg2+ binding site [ion binding]; other site 583346008501 G-X-G motif; other site 583346008502 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346008503 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 583346008504 active site 583346008505 phosphorylation site [posttranslational modification] 583346008506 intermolecular recognition site; other site 583346008507 dimerization interface [polypeptide binding]; other site 583346008508 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 583346008509 DNA binding site [nucleotide binding] 583346008510 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 583346008511 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346008512 dimer interface [polypeptide binding]; other site 583346008513 putative CheW interface [polypeptide binding]; other site 583346008514 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 583346008515 NAD(P) binding site [chemical binding]; other site 583346008516 active site 583346008517 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 583346008518 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346008519 Walker A/P-loop; other site 583346008520 ATP binding site [chemical binding]; other site 583346008521 Q-loop/lid; other site 583346008522 ABC transporter signature motif; other site 583346008523 Walker B; other site 583346008524 D-loop; other site 583346008525 H-loop/switch region; other site 583346008526 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 583346008527 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 583346008528 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 583346008529 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 583346008530 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 583346008531 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 583346008532 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 583346008533 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 583346008534 active site 583346008535 NAD binding site [chemical binding]; other site 583346008536 metal binding site [ion binding]; metal-binding site 583346008537 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 583346008538 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 583346008539 putative catalytic cysteine [active] 583346008540 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 583346008541 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 583346008542 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 583346008543 EamA-like transporter family; Region: EamA; pfam00892 583346008544 EamA-like transporter family; Region: EamA; pfam00892 583346008545 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 583346008546 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 583346008547 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 583346008548 NifU-like domain; Region: NifU; cl00484 583346008549 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 583346008550 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 583346008551 PAS domain S-box; Region: sensory_box; TIGR00229 583346008552 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 583346008553 putative active site [active] 583346008554 heme pocket [chemical binding]; other site 583346008555 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 583346008556 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 583346008557 Walker A motif; other site 583346008558 ATP binding site [chemical binding]; other site 583346008559 Walker B motif; other site 583346008560 arginine finger; other site 583346008561 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 583346008562 (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. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 583346008563 dimer interaction site [polypeptide binding]; other site 583346008564 substrate-binding tunnel; other site 583346008565 active site 583346008566 catalytic site [active] 583346008567 substrate binding site [chemical binding]; other site 583346008568 Acyl-CoA reductase LuxC; Region: ALDH_Acyl-CoA-Red_LuxC; cd07080 583346008569 putative catalytic cysteine [active] 583346008570 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 583346008571 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 583346008572 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 583346008573 acyl-activating enzyme (AAE) consensus motif; other site 583346008574 putative AMP binding site [chemical binding]; other site 583346008575 putative active site [active] 583346008576 putative CoA binding site [chemical binding]; other site 583346008577 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 583346008578 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 583346008579 Peptidases of the G1 family, including scytalidoglutamic peptidase and aspergillopepsin; Region: Peptidase_G1; cd13426 583346008580 polypeptide substrate binding site [polypeptide binding]; other site 583346008581 active site 583346008582 Bacterial PH domain; Region: DUF304; cl01348 583346008583 Predicted membrane protein [Function unknown]; Region: COG3428 583346008584 Bacterial PH domain; Region: DUF304; pfam03703 583346008585 Bacterial PH domain; Region: DUF304; pfam03703 583346008586 Putative transposase, YhgA-like; Region: Transposase_31; pfam04754 583346008587 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 583346008588 Recombinase; Region: Recombinase; pfam07508 583346008589 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346008590 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346008591 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 583346008592 Major Facilitator Superfamily; Region: MFS_1; pfam07690 583346008593 putative substrate translocation pore; other site 583346008594 FtsX-like permease family; Region: FtsX; pfam02687 583346008595 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 583346008596 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 583346008597 FtsX-like permease family; Region: FtsX; pfam02687 583346008598 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 583346008599 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 583346008600 Walker A/P-loop; other site 583346008601 ATP binding site [chemical binding]; other site 583346008602 Q-loop/lid; other site 583346008603 ABC transporter signature motif; other site 583346008604 Walker B; other site 583346008605 D-loop; other site 583346008606 H-loop/switch region; other site 583346008607 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346008608 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 583346008609 dimer interface [polypeptide binding]; other site 583346008610 phosphorylation site [posttranslational modification] 583346008611 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 583346008612 ATP binding site [chemical binding]; other site 583346008613 Mg2+ binding site [ion binding]; other site 583346008614 G-X-G motif; other site 583346008615 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346008616 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 583346008617 active site 583346008618 phosphorylation site [posttranslational modification] 583346008619 intermolecular recognition site; other site 583346008620 dimerization interface [polypeptide binding]; other site 583346008621 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 583346008622 DNA binding site [nucleotide binding] 583346008623 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346008624 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 583346008625 dimer interface [polypeptide binding]; other site 583346008626 phosphorylation site [posttranslational modification] 583346008627 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 583346008628 ATP binding site [chemical binding]; other site 583346008629 Mg2+ binding site [ion binding]; other site 583346008630 G-X-G motif; other site 583346008631 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346008632 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 583346008633 active site 583346008634 phosphorylation site [posttranslational modification] 583346008635 intermolecular recognition site; other site 583346008636 dimerization interface [polypeptide binding]; other site 583346008637 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 583346008638 DNA binding site [nucleotide binding] 583346008639 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 583346008640 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 583346008641 Walker A/P-loop; other site 583346008642 ATP binding site [chemical binding]; other site 583346008643 Q-loop/lid; other site 583346008644 ABC transporter signature motif; other site 583346008645 Walker B; other site 583346008646 D-loop; other site 583346008647 H-loop/switch region; other site 583346008648 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 583346008649 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 583346008650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4200 583346008651 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 583346008652 glutamate dehydrogenase; Provisional; Region: PRK09414 583346008653 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 583346008654 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 583346008655 NAD(P) binding site [chemical binding]; other site 583346008656 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 583346008657 Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor...; Region: AdcA; cd01017 583346008658 metal binding site [ion binding]; metal-binding site 583346008659 YibE/F-like protein; Region: YibE_F; pfam07907 583346008660 Cache domain; Region: Cache_1; pfam02743 583346008661 HAMP domain; Region: HAMP; pfam00672 583346008662 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 583346008663 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346008664 dimer interface [polypeptide binding]; other site 583346008665 putative CheW interface [polypeptide binding]; other site 583346008666 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 583346008667 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346008668 Walker A/P-loop; other site 583346008669 ATP binding site [chemical binding]; other site 583346008670 Q-loop/lid; other site 583346008671 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 583346008672 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 583346008673 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 583346008674 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 583346008675 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 583346008676 membrane-bound complex binding site; other site 583346008677 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 583346008678 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 583346008679 dimer interface [polypeptide binding]; other site 583346008680 conserved gate region; other site 583346008681 putative PBP binding loops; other site 583346008682 ABC-ATPase subunit interface; other site 583346008683 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 583346008684 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 583346008685 Walker A/P-loop; other site 583346008686 ATP binding site [chemical binding]; other site 583346008687 Q-loop/lid; other site 583346008688 ABC transporter signature motif; other site 583346008689 Walker B; other site 583346008690 D-loop; other site 583346008691 H-loop/switch region; other site 583346008692 putative oxidoreductase; Provisional; Region: PRK08275 583346008693 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 583346008694 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 583346008695 Ferredoxin [Energy production and conversion]; Region: COG1146 583346008696 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 583346008697 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 583346008698 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 583346008699 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 583346008700 catalytic residue [active] 583346008701 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 583346008702 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 583346008703 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 583346008704 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 583346008705 Protein of unknown function (DUF1659); Region: DUF1659; pfam07872 583346008706 Uncharacterized protein conserved in bacteria (DUF2140); Region: DUF2140; cl11548 583346008707 Outer membrane efflux protein; Region: OEP; pfam02321 583346008708 Outer membrane efflux protein; Region: OEP; pfam02321 583346008709 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 583346008710 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346008711 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346008712 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346008713 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346008714 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346008715 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346008716 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346008717 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346008718 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 583346008719 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 583346008720 FeS/SAM binding site; other site 583346008721 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 583346008722 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 583346008723 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 583346008724 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346008725 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346008726 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346008727 nitrogenase alpha chain; Region: alt_nitrog_alph; TIGR01284 583346008728 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 583346008729 Nitrogen regulatory protein P-II; Region: P-II; smart00938 583346008730 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 583346008731 Nitrogen regulatory protein P-II; Region: P-II; smart00938 583346008732 nitrogenase reductase; Reviewed; Region: nifH; PRK13235 583346008733 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 583346008734 Nucleotide-binding sites [chemical binding]; other site 583346008735 Walker A motif; other site 583346008736 Switch I region of nucleotide binding site; other site 583346008737 Fe4S4 binding sites [ion binding]; other site 583346008738 Switch II region of nucleotide binding site; other site 583346008739 Helix-turn-helix domain; Region: HTH_17; pfam12728 583346008740 PBP superfamily domain; Region: PBP_like; pfam12727 583346008741 molybdenum-pterin binding domain; Region: Mop; TIGR00638 583346008742 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 583346008743 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346008744 Walker A/P-loop; other site 583346008745 ATP binding site [chemical binding]; other site 583346008746 Q-loop/lid; other site 583346008747 ABC transporter signature motif; other site 583346008748 Walker B; other site 583346008749 D-loop; other site 583346008750 H-loop/switch region; other site 583346008751 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 583346008752 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 583346008753 dimer interface [polypeptide binding]; other site 583346008754 conserved gate region; other site 583346008755 putative PBP binding loops; other site 583346008756 ABC-ATPase subunit interface; other site 583346008757 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 583346008758 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 583346008759 Listerrria innocua Lin0431 is similar to the N-Utilization Substance G (NusG) N terminal (NGN) insert (DII); Region: Lin0431_like; cd09911 583346008760 trimer interface [polypeptide binding]; other site 583346008761 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 583346008762 Sensory domain found in PocR; Region: PocR; pfam10114 583346008763 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346008764 putative CheW interface [polypeptide binding]; other site 583346008765 Predicted AAA-ATPase; Region: AAA-ATPase_like; pfam09820 583346008766 Probable transposase; Region: OrfB_IS605; pfam01385 583346008767 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 583346008768 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 583346008769 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 583346008770 Bacterial Ig-like domain; Region: Big_5; pfam13205 583346008771 Transposase [DNA replication, recombination, and repair]; Region: COG5421 583346008772 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 583346008773 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 583346008774 active site 583346008775 DNA binding site [nucleotide binding] 583346008776 Int/Topo IB signature motif; other site 583346008777 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 583346008778 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346008779 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346008780 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346008781 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346008782 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346008783 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346008784 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 583346008785 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 583346008786 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 583346008787 Ligand Binding Site [chemical binding]; other site 583346008788 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346008789 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 583346008790 dimer interface [polypeptide binding]; other site 583346008791 phosphorylation site [posttranslational modification] 583346008792 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 583346008793 ATP binding site [chemical binding]; other site 583346008794 Mg2+ binding site [ion binding]; other site 583346008795 G-X-G motif; other site 583346008796 Accessory gene regulator B; Region: AgrB; pfam04647 583346008797 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 583346008798 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 583346008799 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 583346008800 putative active site [active] 583346008801 heme pocket [chemical binding]; other site 583346008802 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 583346008803 dimer interface [polypeptide binding]; other site 583346008804 phosphorylation site [posttranslational modification] 583346008805 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 583346008806 ATP binding site [chemical binding]; other site 583346008807 Mg2+ binding site [ion binding]; other site 583346008808 G-X-G motif; other site 583346008809 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 583346008810 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 583346008811 dimerization interface [polypeptide binding]; other site 583346008812 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346008813 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 583346008814 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346008815 dimer interface [polypeptide binding]; other site 583346008816 putative CheW interface [polypeptide binding]; other site 583346008817 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 583346008818 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 583346008819 inhibitor-cofactor binding pocket; inhibition site 583346008820 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346008821 catalytic residue [active] 583346008822 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 583346008823 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 583346008824 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 583346008825 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 583346008826 active site 583346008827 ATP binding site [chemical binding]; other site 583346008828 Haemolysin-III related; Region: HlyIII; cl03831 583346008829 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 583346008830 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 583346008831 EamA-like transporter family; Region: EamA; pfam00892 583346008832 EamA-like transporter family; Region: EamA; pfam00892 583346008833 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 583346008834 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 583346008835 dimer interface [polypeptide binding]; other site 583346008836 anticodon binding site; other site 583346008837 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 583346008838 homodimer interface [polypeptide binding]; other site 583346008839 motif 1; other site 583346008840 active site 583346008841 motif 2; other site 583346008842 GAD domain; Region: GAD; pfam02938 583346008843 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 583346008844 motif 3; other site 583346008845 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 583346008846 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 583346008847 dimer interface [polypeptide binding]; other site 583346008848 motif 1; other site 583346008849 active site 583346008850 motif 2; other site 583346008851 motif 3; other site 583346008852 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 583346008853 anticodon binding site; other site 583346008854 coproporphyrinogen III oxidase; Provisional; Region: PRK08207 583346008855 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 583346008856 FeS/SAM binding site; other site 583346008857 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 583346008858 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 583346008859 putative active site [active] 583346008860 dimerization interface [polypeptide binding]; other site 583346008861 putative tRNAtyr binding site [nucleotide binding]; other site 583346008862 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 583346008863 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 583346008864 Zn2+ binding site [ion binding]; other site 583346008865 Mg2+ binding site [ion binding]; other site 583346008866 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 583346008867 synthetase active site [active] 583346008868 NTP binding site [chemical binding]; other site 583346008869 metal binding site [ion binding]; metal-binding site 583346008870 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 583346008871 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 583346008872 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 583346008873 active site 583346008874 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 583346008875 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 583346008876 Probable transposase; Region: OrfB_IS605; pfam01385 583346008877 DHH family; Region: DHH; pfam01368 583346008878 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 583346008879 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 583346008880 Protein export membrane protein; Region: SecD_SecF; cl14618 583346008881 protein-export membrane protein SecD; Region: secD; TIGR01129 583346008882 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 583346008883 SCIFF radical SAM maturase; Region: rSAM_six_Cys; TIGR03974 583346008884 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 583346008885 FeS/SAM binding site; other site 583346008886 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 583346008887 Protein of unknown function (DUF3792); Region: DUF3792; pfam12670 583346008888 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 583346008889 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 583346008890 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 583346008891 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 583346008892 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 583346008893 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 583346008894 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 583346008895 Walker A motif; other site 583346008896 ATP binding site [chemical binding]; other site 583346008897 Walker B motif; other site 583346008898 arginine finger; other site 583346008899 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 583346008900 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 583346008901 RuvA N terminal domain; Region: RuvA_N; pfam01330 583346008902 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 583346008903 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 583346008904 hypothetical protein; Validated; Region: PRK00110 583346008905 Uncharacterized conserved protein [Function unknown]; Region: COG1739 583346008906 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 583346008907 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 583346008908 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 583346008909 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 583346008910 DNA-binding site [nucleotide binding]; DNA binding site 583346008911 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 583346008912 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346008913 homodimer interface [polypeptide binding]; other site 583346008914 catalytic residue [active] 583346008915 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 583346008916 active site 583346008917 NTP binding site [chemical binding]; other site 583346008918 metal binding triad [ion binding]; metal-binding site 583346008919 antibiotic binding site [chemical binding]; other site 583346008920 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 583346008921 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 583346008922 HflX GTPase family; Region: HflX; cd01878 583346008923 G1 box; other site 583346008924 GTP/Mg2+ binding site [chemical binding]; other site 583346008925 Switch I region; other site 583346008926 G2 box; other site 583346008927 G3 box; other site 583346008928 Switch II region; other site 583346008929 G4 box; other site 583346008930 G5 box; other site 583346008931 Transglycosylase; Region: Transgly; pfam00912 583346008932 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 583346008933 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 583346008934 sporulation sigma factor SigF; Validated; Region: PRK05572 583346008935 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 583346008936 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 583346008937 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 583346008938 DNA binding residues [nucleotide binding] 583346008939 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 583346008940 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 583346008941 ATP binding site [chemical binding]; other site 583346008942 Mg2+ binding site [ion binding]; other site 583346008943 G-X-G motif; other site 583346008944 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 583346008945 anti sigma factor interaction site; other site 583346008946 regulatory phosphorylation site [posttranslational modification]; other site 583346008947 spermidine synthase; Provisional; Region: PRK00811 583346008948 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 583346008949 S-adenosylmethionine binding site [chemical binding]; other site 583346008950 Methyltransferase domain; Region: Methyltransf_26; pfam13659 583346008951 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 583346008952 delta-lactam-biosynthetic de-N-acetylase; Region: spore_pdaA; TIGR02884 583346008953 Catalytic NodB homology domain of Bacillus subtilis polysaccharide deacetylase PdaA, and its bacterial homologs; Region: CE4_BsPdaA_like; cd10948 583346008954 NodB motif; other site 583346008955 active site 583346008956 catalytic site [active] 583346008957 Cd binding site [ion binding]; other site 583346008958 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 583346008959 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 583346008960 Bacterial sugar transferase; Region: Bac_transf; pfam02397 583346008961 Acyltransferase family; Region: Acyl_transf_3; pfam01757 583346008962 Protein involved in polysaccharide intercellular adhesin (PIA) synthesis/biofilm formation [Carbohydrate transport and metabolism]; Region: COG3936 583346008963 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 583346008964 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 583346008965 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 583346008966 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 583346008967 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 583346008968 O-Antigen ligase; Region: Wzy_C; cl04850 583346008969 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 583346008970 active site 583346008971 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 583346008972 homodimer interface [polypeptide binding]; other site 583346008973 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 583346008974 putative trimer interface [polypeptide binding]; other site 583346008975 putative CoA binding site [chemical binding]; other site 583346008976 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 583346008977 putative trimer interface [polypeptide binding]; other site 583346008978 putative active site [active] 583346008979 putative substrate binding site [chemical binding]; other site 583346008980 putative CoA binding site [chemical binding]; other site 583346008981 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 583346008982 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 583346008983 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 583346008984 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 583346008985 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 583346008986 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 583346008987 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 583346008988 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 583346008989 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 583346008990 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 583346008991 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 583346008992 Acyltransferase family; Region: Acyl_transf_3; pfam01757 583346008993 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 583346008994 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 583346008995 Ligand binding site; other site 583346008996 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 583346008997 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 583346008998 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 583346008999 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 583346009000 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 583346009001 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 583346009002 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 583346009003 NAD(P) binding site [chemical binding]; other site 583346009004 homodimer interface [polypeptide binding]; other site 583346009005 substrate binding site [chemical binding]; other site 583346009006 active site 583346009007 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 583346009008 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 583346009009 active site 583346009010 tetramer interface; other site 583346009011 Tetratricopeptide repeat; Region: TPR_12; pfam13424 583346009012 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 583346009013 binding surface 583346009014 TPR motif; other site 583346009015 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 583346009016 active site 583346009017 substrate binding site [chemical binding]; other site 583346009018 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 583346009019 metal binding site [ion binding]; metal-binding site 583346009020 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 583346009021 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 583346009022 homodimer interface [polypeptide binding]; other site 583346009023 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346009024 catalytic residue [active] 583346009025 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 583346009026 Uncharacterized conserved protein [Function unknown]; Region: COG1683 583346009027 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 583346009028 MutS domain III; Region: MutS_III; pfam05192 583346009029 ATP-binding cassette domain of MutS2; Region: ABC_MutS2; cd03280 583346009030 Walker A/P-loop; other site 583346009031 ATP binding site [chemical binding]; other site 583346009032 Q-loop/lid; other site 583346009033 ABC transporter signature motif; other site 583346009034 Walker B; other site 583346009035 D-loop; other site 583346009036 H-loop/switch region; other site 583346009037 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 583346009038 Smr domain; Region: Smr; pfam01713 583346009039 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 583346009040 Peptidase family U32; Region: Peptidase_U32; pfam01136 583346009041 Collagenase; Region: DUF3656; pfam12392 583346009042 Peptidase family U32; Region: Peptidase_U32; cl03113 583346009043 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 583346009044 Cell division protein ZapA; Region: ZapA; pfam05164 583346009045 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 583346009046 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 583346009047 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 583346009048 putative tRNA-binding site [nucleotide binding]; other site 583346009049 B3/4 domain; Region: B3_4; pfam03483 583346009050 tRNA synthetase B5 domain; Region: B5; smart00874 583346009051 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 583346009052 dimer interface [polypeptide binding]; other site 583346009053 motif 1; other site 583346009054 motif 3; other site 583346009055 motif 2; other site 583346009056 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 583346009057 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 583346009058 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 583346009059 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 583346009060 dimer interface [polypeptide binding]; other site 583346009061 motif 1; other site 583346009062 active site 583346009063 motif 2; other site 583346009064 motif 3; other site 583346009065 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 583346009066 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 583346009067 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 583346009068 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 583346009069 23S rRNA binding site [nucleotide binding]; other site 583346009070 L21 binding site [polypeptide binding]; other site 583346009071 L13 binding site [polypeptide binding]; other site 583346009072 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 583346009073 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 583346009074 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 583346009075 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 583346009076 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 583346009077 active site 583346009078 dimer interface [polypeptide binding]; other site 583346009079 motif 1; other site 583346009080 motif 2; other site 583346009081 motif 3; other site 583346009082 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 583346009083 anticodon binding site; other site 583346009084 YtxC-like family; Region: YtxC; pfam08812 583346009085 PAS domain; Region: PAS; smart00091 583346009086 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 583346009087 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 583346009088 putative active site [active] 583346009089 heme pocket [chemical binding]; other site 583346009090 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 583346009091 dimer interface [polypeptide binding]; other site 583346009092 phosphorylation site [posttranslational modification] 583346009093 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 583346009094 ATP binding site [chemical binding]; other site 583346009095 Mg2+ binding site [ion binding]; other site 583346009096 G-X-G motif; other site 583346009097 aminotransferase A; Validated; Region: PRK07683 583346009098 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 583346009099 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346009100 homodimer interface [polypeptide binding]; other site 583346009101 catalytic residue [active] 583346009102 dihydrodipicolinate reductase; Provisional; Region: PRK00048 583346009103 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 583346009104 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 583346009105 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 583346009106 dihydrodipicolinate synthase; Region: dapA; TIGR00674 583346009107 dimer interface [polypeptide binding]; other site 583346009108 active site 583346009109 catalytic residue [active] 583346009110 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 583346009111 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 583346009112 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 583346009113 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 583346009114 S-adenosylmethionine binding site [chemical binding]; other site 583346009115 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 583346009116 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 583346009117 dimerization interface [polypeptide binding]; other site 583346009118 domain crossover interface; other site 583346009119 redox-dependent activation switch; other site 583346009120 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 583346009121 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 583346009122 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 583346009123 trimer interface [polypeptide binding]; other site 583346009124 active site 583346009125 substrate binding site [chemical binding]; other site 583346009126 CoA binding site [chemical binding]; other site 583346009127 single-stranded DNA-binding protein; Provisional; Region: PRK05813 583346009128 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 583346009129 dimer interface [polypeptide binding]; other site 583346009130 ssDNA binding site [nucleotide binding]; other site 583346009131 tetramer (dimer of dimers) interface [polypeptide binding]; other site 583346009132 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 583346009133 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 583346009134 NodB motif; other site 583346009135 active site 583346009136 catalytic site [active] 583346009137 metal binding site [ion binding]; metal-binding site 583346009138 Domain of unknown function (DUF4364); Region: DUF4364; pfam14277 583346009139 Uncharacterized conserved protein [Function unknown]; Region: COG3391 583346009140 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 583346009141 TSCPD domain; Region: TSCPD; cl14834 583346009142 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 583346009143 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 583346009144 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 583346009145 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 583346009146 active site 583346009147 HIGH motif; other site 583346009148 nucleotide binding site [chemical binding]; other site 583346009149 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 583346009150 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 583346009151 active site 583346009152 KMSKS motif; other site 583346009153 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 583346009154 tRNA binding surface [nucleotide binding]; other site 583346009155 anticodon binding site; other site 583346009156 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 583346009157 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 583346009158 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 583346009159 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346009160 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 583346009161 non-specific DNA binding site [nucleotide binding]; other site 583346009162 salt bridge; other site 583346009163 sequence-specific DNA binding site [nucleotide binding]; other site 583346009164 Predicted membrane protein (DUF2335); Region: DUF2335; pfam10097 583346009165 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 583346009166 Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a...; Region: SR_TndX_transposase; cd03770 583346009167 putative catalytic residues [active] 583346009168 catalytic nucleophile [active] 583346009169 Recombinase; Region: Recombinase; pfam07508 583346009170 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 583346009171 Domain of unknown function (DUF4368); Region: DUF4368; pfam14287 583346009172 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 583346009173 Phage capsid family; Region: Phage_capsid; pfam05065 583346009174 Uncharacterized conserved protein [Function unknown]; Region: COG4983 583346009175 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 583346009176 D5 N terminal like; Region: D5_N; smart00885 583346009177 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 583346009178 Poxvirus D5 protein-like; Region: Pox_D5; pfam03288 583346009179 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 583346009180 non-specific DNA binding site [nucleotide binding]; other site 583346009181 salt bridge; other site 583346009182 sequence-specific DNA binding site [nucleotide binding]; other site 583346009183 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 583346009184 DNA methylase; Region: N6_N4_Mtase; pfam01555 583346009185 DNA methylase; Region: N6_N4_Mtase; cl17433 583346009186 type III restriction-modification system StyLTI enzyme res; Provisional; Region: PRK15483 583346009187 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 583346009188 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 583346009189 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346009190 AAA domain; Region: AAA_21; pfam13304 583346009191 Walker A/P-loop; other site 583346009192 ATP binding site [chemical binding]; other site 583346009193 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 583346009194 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346009195 Walker B; other site 583346009196 D-loop; other site 583346009197 H-loop/switch region; other site 583346009198 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 583346009199 putative active site [active] 583346009200 putative metal-binding site [ion binding]; other site 583346009201 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cd00599 583346009202 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 583346009203 active site 583346009204 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 583346009205 Holin family; Region: Phage_holin_4; pfam05105 583346009206 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 583346009207 Baseplate J-like protein; Region: Baseplate_J; pfam04865 583346009208 Protein of unknown function (DUF2634); Region: DUF2634; pfam10934 583346009209 Bacterial SH3 domain; Region: SH3_3; pfam08239 583346009210 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 583346009211 Phage XkdN-like protein; Region: XkdN; pfam08890 583346009212 ORF6N domain; Region: ORF6N; pfam10543 583346009213 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 583346009214 Protein of unknown function (DUF2001); Region: DUF2001; pfam09393 583346009215 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 583346009216 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 583346009217 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 583346009218 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 583346009219 Phage terminase large subunit [General function prediction only]; Region: XtmB; COG1783 583346009220 Terminase-like family; Region: Terminase_6; pfam03237 583346009221 Terminase small subunit; Region: Terminase_2; pfam03592 583346009222 YcfA-like protein; Region: YcfA; pfam07927 583346009223 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 583346009224 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 583346009225 DNA binding residues [nucleotide binding] 583346009226 dimerization interface [polypeptide binding]; other site 583346009227 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 583346009228 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 583346009229 cofactor binding site; other site 583346009230 DNA binding site [nucleotide binding] 583346009231 substrate interaction site [chemical binding]; other site 583346009232 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 583346009233 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 583346009234 replicative DNA helicase; Region: DnaB; TIGR00665 583346009235 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 583346009236 Walker A motif; other site 583346009237 ATP binding site [chemical binding]; other site 583346009238 Walker B motif; other site 583346009239 DNA binding loops [nucleotide binding] 583346009240 N-terminal phage replisome organiser (Phage_rep_org_N); Region: Phage_rep_org_N; pfam09681 583346009241 exodeoxyribonuclease X; Provisional; Region: PRK07983 583346009242 Siphovirus Gp157; Region: Sipho_Gp157; pfam05565 583346009243 YopX protein; Region: YopX; pfam09643 583346009244 ORF6N domain; Region: ORF6N; pfam10543 583346009245 ORF6C domain; Region: ORF6C; pfam10552 583346009246 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346009247 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 583346009248 non-specific DNA binding site [nucleotide binding]; other site 583346009249 salt bridge; other site 583346009250 sequence-specific DNA binding site [nucleotide binding]; other site 583346009251 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346009252 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 583346009253 non-specific DNA binding site [nucleotide binding]; other site 583346009254 salt bridge; other site 583346009255 sequence-specific DNA binding site [nucleotide binding]; other site 583346009256 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 583346009257 non-specific DNA binding site [nucleotide binding]; other site 583346009258 salt bridge; other site 583346009259 sequence-specific DNA binding site [nucleotide binding]; other site 583346009260 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346009261 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 583346009262 non-specific DNA binding site [nucleotide binding]; other site 583346009263 salt bridge; other site 583346009264 sequence-specific DNA binding site [nucleotide binding]; other site 583346009265 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 583346009266 non-specific DNA binding site [nucleotide binding]; other site 583346009267 salt bridge; other site 583346009268 sequence-specific DNA binding site [nucleotide binding]; other site 583346009269 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 583346009270 ATP binding site [chemical binding]; other site 583346009271 Mg2+ binding site [ion binding]; other site 583346009272 G-X-G motif; other site 583346009273 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 583346009274 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 583346009275 catalytic residues [active] 583346009276 catalytic nucleophile [active] 583346009277 Presynaptic Site I dimer interface [polypeptide binding]; other site 583346009278 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 583346009279 Synaptic Flat tetramer interface [polypeptide binding]; other site 583346009280 Synaptic Site I dimer interface [polypeptide binding]; other site 583346009281 DNA binding site [nucleotide binding] 583346009282 Recombinase; Region: Recombinase; pfam07508 583346009283 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 583346009284 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 583346009285 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 583346009286 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 583346009287 Rubrerythrin [Energy production and conversion]; Region: COG1592 583346009288 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 583346009289 iron binding site [ion binding]; other site 583346009290 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 583346009291 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 583346009292 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]; Region: COG1924 583346009293 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 583346009294 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3580 583346009295 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 583346009296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3581 583346009297 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 583346009298 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 583346009299 Walker A/P-loop; other site 583346009300 ATP binding site [chemical binding]; other site 583346009301 Q-loop/lid; other site 583346009302 ABC transporter signature motif; other site 583346009303 Walker B; other site 583346009304 D-loop; other site 583346009305 H-loop/switch region; other site 583346009306 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 583346009307 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 583346009308 dimer interface [polypeptide binding]; other site 583346009309 conserved gate region; other site 583346009310 putative PBP binding loops; other site 583346009311 ABC-ATPase subunit interface; other site 583346009312 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 583346009313 binding surface 583346009314 TPR repeat; Region: TPR_11; pfam13414 583346009315 TPR motif; other site 583346009316 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 583346009317 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 583346009318 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 583346009319 Transposase; Region: DEDD_Tnp_IS110; pfam01548 583346009320 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 583346009321 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 583346009322 recombination regulator RecX; Provisional; Region: recX; PRK14134 583346009323 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 583346009324 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 583346009325 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 583346009326 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 583346009327 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 583346009328 ATP binding site [chemical binding]; other site 583346009329 Mg++ binding site [ion binding]; other site 583346009330 motif III; other site 583346009331 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 583346009332 nucleotide binding region [chemical binding]; other site 583346009333 ATP-binding site [chemical binding]; other site 583346009334 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 583346009335 RNA binding site [nucleotide binding]; other site 583346009336 Uncharacterized conserved protein [Function unknown]; Region: COG1543 583346009337 N-terminal catalytic domain of alpha-amylase ( AmyC ) and similar proteins; Region: GH57N_AmyC_like; cd10792 583346009338 active site 583346009339 substrate binding site [chemical binding]; other site 583346009340 catalytic site [active] 583346009341 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 583346009342 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3330 583346009343 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 583346009344 putative deacylase active site [active] 583346009345 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 583346009346 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 583346009347 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 583346009348 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 583346009349 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 583346009350 catalytic residue [active] 583346009351 putative FPP diphosphate binding site; other site 583346009352 putative FPP binding hydrophobic cleft; other site 583346009353 dimer interface [polypeptide binding]; other site 583346009354 putative IPP diphosphate binding site; other site 583346009355 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 583346009356 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 583346009357 dimer interface [polypeptide binding]; other site 583346009358 PYR/PP interface [polypeptide binding]; other site 583346009359 TPP binding site [chemical binding]; other site 583346009360 substrate binding site [chemical binding]; other site 583346009361 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 583346009362 Domain of unknown function; Region: EKR; smart00890 583346009363 4Fe-4S binding domain; Region: Fer4_6; pfam12837 583346009364 4Fe-4S binding domain; Region: Fer4; pfam00037 583346009365 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 583346009366 TPP-binding site [chemical binding]; other site 583346009367 dimer interface [polypeptide binding]; other site 583346009368 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 583346009369 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 583346009370 hybrid cluster protein-associated redox disulfide domain; Region: prismane_assoc; TIGR03980 583346009371 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 583346009372 ApbE family; Region: ApbE; pfam02424 583346009373 cobalamin synthase; Reviewed; Region: cobS; PRK00235 583346009374 ferric uptake regulator; Provisional; Region: fur; PRK09462 583346009375 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 583346009376 metal binding site 2 [ion binding]; metal-binding site 583346009377 putative DNA binding helix; other site 583346009378 metal binding site 1 [ion binding]; metal-binding site 583346009379 dimer interface [polypeptide binding]; other site 583346009380 structural Zn2+ binding site [ion binding]; other site 583346009381 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 583346009382 Family description; Region: VCBS; pfam13517 583346009383 Predicted transcriptional regulator [Transcription]; Region: COG2378 583346009384 HTH domain; Region: HTH_11; pfam08279 583346009385 WYL domain; Region: WYL; pfam13280 583346009386 CAAX protease self-immunity; Region: Abi; cl00558 583346009387 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 583346009388 G1 box; other site 583346009389 GTP/Mg2+ binding site [chemical binding]; other site 583346009390 Switch I region; other site 583346009391 G2 box; other site 583346009392 G3 box; other site 583346009393 Switch II region; other site 583346009394 G4 box; other site 583346009395 G5 box; other site 583346009396 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 583346009397 Found in ATP-dependent protease La (LON); Region: LON; smart00464 583346009398 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 583346009399 Walker A motif; other site 583346009400 ATP binding site [chemical binding]; other site 583346009401 Walker B motif; other site 583346009402 arginine finger; other site 583346009403 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 583346009404 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 583346009405 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 583346009406 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 583346009407 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 583346009408 Walker A motif; other site 583346009409 ATP binding site [chemical binding]; other site 583346009410 Walker B motif; other site 583346009411 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 583346009412 Clp protease; Region: CLP_protease; pfam00574 583346009413 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 583346009414 oligomer interface [polypeptide binding]; other site 583346009415 active site residues [active] 583346009416 trigger factor; Provisional; Region: tig; PRK01490 583346009417 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 583346009418 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 583346009419 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 583346009420 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 583346009421 Metal-binding active site; metal-binding site 583346009422 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 583346009423 active site 583346009424 Dihydroorotate dehydrogenase (DHOD) class 1B FMN-binding domain. 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...; Region: DHOD_1B_like; cd04740 583346009425 dihydroorotate dehydrogenase (subfamily 1) family protein; Region: pyrD_sub1_fam; TIGR01037 583346009426 heterodimer interface [polypeptide binding]; other site 583346009427 active site 583346009428 FMN binding site [chemical binding]; other site 583346009429 homodimer interface [polypeptide binding]; other site 583346009430 substrate binding site [chemical binding]; other site 583346009431 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 583346009432 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to...; Region: DHOD_e_trans; cd06218 583346009433 FAD binding pocket [chemical binding]; other site 583346009434 FAD binding motif [chemical binding]; other site 583346009435 phosphate binding motif [ion binding]; other site 583346009436 beta-alpha-beta structure motif; other site 583346009437 NAD binding pocket [chemical binding]; other site 583346009438 Iron coordination center [ion binding]; other site 583346009439 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 583346009440 active site 583346009441 dimer interface [polypeptide binding]; other site 583346009442 dihydroorotase; Validated; Region: pyrC; PRK09357 583346009443 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 583346009444 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 583346009445 active site 583346009446 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 583346009447 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 583346009448 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 583346009449 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 583346009450 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 583346009451 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 583346009452 manganese transport transcriptional regulator; Provisional; Region: PRK03902 583346009453 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 583346009454 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 583346009455 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 583346009456 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 583346009457 active site 583346009458 tetramer interface; other site 583346009459 Spo0E like sporulation regulatory protein; Region: SpoOE-like; pfam09388 583346009460 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 583346009461 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 583346009462 Accessory gene regulator B; Region: AgrB; pfam04647 583346009463 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 583346009464 ATP binding site [chemical binding]; other site 583346009465 Mg2+ binding site [ion binding]; other site 583346009466 G-X-G motif; other site 583346009467 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 583346009468 Nitrogen regulatory protein P-II; Region: P-II; smart00938 583346009469 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 583346009470 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 583346009471 Transcriptional regulator [Transcription]; Region: LysR; COG0583 583346009472 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 583346009473 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 583346009474 dimerization interface [polypeptide binding]; other site 583346009475 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 583346009476 SmpB-tmRNA interface; other site 583346009477 ribonuclease R; Region: RNase_R; TIGR02063 583346009478 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 583346009479 RNA binding site [nucleotide binding]; other site 583346009480 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 583346009481 RNB domain; Region: RNB; pfam00773 583346009482 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 583346009483 RNA binding site [nucleotide binding]; other site 583346009484 Preprotein translocase SecG subunit; Region: SecG; pfam03840 583346009485 enolase; Provisional; Region: eno; PRK00077 583346009486 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 583346009487 dimer interface [polypeptide binding]; other site 583346009488 metal binding site [ion binding]; metal-binding site 583346009489 substrate binding pocket [chemical binding]; other site 583346009490 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 583346009491 phosphoglyceromutase; Provisional; Region: PRK05434 583346009492 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 583346009493 triosephosphate isomerase; Provisional; Region: PRK14565 583346009494 substrate binding site [chemical binding]; other site 583346009495 dimer interface [polypeptide binding]; other site 583346009496 catalytic triad [active] 583346009497 Phosphoglycerate kinase; Region: PGK; pfam00162 583346009498 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 583346009499 substrate binding site [chemical binding]; other site 583346009500 hinge regions; other site 583346009501 ADP binding site [chemical binding]; other site 583346009502 catalytic site [active] 583346009503 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 583346009504 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 583346009505 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 583346009506 EDD domain protein, DegV family; Region: DegV; TIGR00762 583346009507 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 583346009508 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 583346009509 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 583346009510 Radical SAM superfamily; Region: Radical_SAM; pfam04055 583346009511 FeS/SAM binding site; other site 583346009512 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 583346009513 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 583346009514 active site 583346009515 metal binding site [ion binding]; metal-binding site 583346009516 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 583346009517 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 583346009518 Hexamer interface [polypeptide binding]; other site 583346009519 Hexagonal pore residue; other site 583346009520 Uncharacterized conserved protein [Function unknown]; Region: COG5663 583346009521 EamA-like transporter family; Region: EamA; pfam00892 583346009522 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 583346009523 EamA-like transporter family; Region: EamA; pfam00892 583346009524 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 583346009525 FtsX-like permease family; Region: FtsX; pfam02687 583346009526 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 583346009527 FtsX-like permease family; Region: FtsX; pfam02687 583346009528 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 583346009529 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 583346009530 Walker A/P-loop; other site 583346009531 ATP binding site [chemical binding]; other site 583346009532 Q-loop/lid; other site 583346009533 ABC transporter signature motif; other site 583346009534 Walker B; other site 583346009535 D-loop; other site 583346009536 H-loop/switch region; other site 583346009537 Domain of unknown function (DUF3784); Region: DUF3784; pfam12650 583346009538 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346009539 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 583346009540 dimer interface [polypeptide binding]; other site 583346009541 phosphorylation site [posttranslational modification] 583346009542 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 583346009543 ATP binding site [chemical binding]; other site 583346009544 Mg2+ binding site [ion binding]; other site 583346009545 G-X-G motif; other site 583346009546 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346009547 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 583346009548 active site 583346009549 phosphorylation site [posttranslational modification] 583346009550 intermolecular recognition site; other site 583346009551 dimerization interface [polypeptide binding]; other site 583346009552 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 583346009553 DNA binding site [nucleotide binding] 583346009554 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 583346009555 Transposase; Region: DEDD_Tnp_IS110; pfam01548 583346009556 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 583346009557 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 583346009558 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 583346009559 salt bridge; other site 583346009560 non-specific DNA binding site [nucleotide binding]; other site 583346009561 sequence-specific DNA binding site [nucleotide binding]; other site 583346009562 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 583346009563 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 583346009564 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 583346009565 MarR family; Region: MarR; pfam01047 583346009566 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 583346009567 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 583346009568 putative substrate translocation pore; other site 583346009569 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 583346009570 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 583346009571 active site 583346009572 Amino acid permease; Region: AA_permease_2; pfam13520 583346009573 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 583346009574 Integrase core domain; Region: rve; pfam00665 583346009575 Integrase core domain; Region: rve_3; pfam13683 583346009576 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 583346009577 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 583346009578 VanW like protein; Region: VanW; pfam04294 583346009579 competence damage-inducible protein A; Provisional; Region: PRK00549 583346009580 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 583346009581 putative MPT binding site; other site 583346009582 Competence-damaged protein; Region: CinA; pfam02464 583346009583 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 583346009584 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 583346009585 minor groove reading motif; other site 583346009586 helix-hairpin-helix signature motif; other site 583346009587 substrate binding pocket [chemical binding]; other site 583346009588 active site 583346009589 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 583346009590 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 583346009591 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 583346009592 putative acyl-acceptor binding pocket; other site 583346009593 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 583346009594 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 583346009595 trimer interface [polypeptide binding]; other site 583346009596 active site 583346009597 substrate binding site [chemical binding]; other site 583346009598 CoA binding site [chemical binding]; other site 583346009599 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 583346009600 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 583346009601 dimer interface [polypeptide binding]; other site 583346009602 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346009603 catalytic residue [active] 583346009604 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 583346009605 Bacterial Ig-like domain; Region: Big_5; pfam13205 583346009606 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 583346009607 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 583346009608 G1 box; other site 583346009609 GTP/Mg2+ binding site [chemical binding]; other site 583346009610 G2 box; other site 583346009611 Switch I region; other site 583346009612 G3 box; other site 583346009613 Switch II region; other site 583346009614 G4 box; other site 583346009615 G5 box; other site 583346009616 1,2-propanediol utilization protein U (PduU)/ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain; Region: BMC_PduU-EutS; cd07046 583346009617 putative hexamer interface [polypeptide binding]; other site 583346009618 putative hexagonal pore; other site 583346009619 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 583346009620 Rubredoxin; Region: Rubredoxin; pfam00301 583346009621 iron binding site [ion binding]; other site 583346009622 Rubrerythrin [Energy production and conversion]; Region: COG1592 583346009623 rubrerythrin-like, diiron-binding domain; Region: Rubrerythrin_like; cd01046 583346009624 diiron binding motif [ion binding]; other site 583346009625 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 583346009626 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 583346009627 GTPase; Provisional; Region: PRK13768 583346009628 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 583346009629 G1 box; other site 583346009630 GTP/Mg2+ binding site [chemical binding]; other site 583346009631 G2 box; other site 583346009632 Switch I region; other site 583346009633 G3 box; other site 583346009634 Switch II region; other site 583346009635 G4 box; other site 583346009636 G5 box; other site 583346009637 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 583346009638 Predicted membrane protein [Function unknown]; Region: COG2364 583346009639 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 583346009640 Predicted membrane protein [Function unknown]; Region: COG2119 583346009641 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 583346009642 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 583346009643 EamA-like transporter family; Region: EamA; pfam00892 583346009644 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 583346009645 EamA-like transporter family; Region: EamA; pfam00892 583346009646 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 583346009647 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 583346009648 dimer interface [polypeptide binding]; other site 583346009649 active site 583346009650 metal binding site [ion binding]; metal-binding site 583346009651 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13639 583346009652 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 583346009653 Walker A/P-loop; other site 583346009654 ATP binding site [chemical binding]; other site 583346009655 Q-loop/lid; other site 583346009656 ABC transporter signature motif; other site 583346009657 Walker B; other site 583346009658 D-loop; other site 583346009659 H-loop/switch region; other site 583346009660 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 583346009661 cobalt transport protein CbiN; Provisional; Region: PRK02898 583346009662 cobalt transport protein CbiM; Validated; Region: PRK08319 583346009663 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 583346009664 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 583346009665 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 583346009666 Predicted sensor domain [Signal transduction mechanisms / Transcription]; Region: PocR; COG4936 583346009667 Sensory domain found in PocR; Region: PocR; pfam10114 583346009668 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346009669 dimer interface [polypeptide binding]; other site 583346009670 putative CheW interface [polypeptide binding]; other site 583346009671 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 583346009672 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 583346009673 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 583346009674 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 583346009675 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 583346009676 metal binding site 2 [ion binding]; metal-binding site 583346009677 putative DNA binding helix; other site 583346009678 metal binding site 1 [ion binding]; metal-binding site 583346009679 dimer interface [polypeptide binding]; other site 583346009680 structural Zn2+ binding site [ion binding]; other site 583346009681 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 583346009682 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 583346009683 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 583346009684 dimer interface [polypeptide binding]; other site 583346009685 putative CheW interface [polypeptide binding]; other site 583346009686 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 583346009687 iron-containing alcohol dehydrogenases (Fe-ADH)-like; Region: Fe-ADH; cd08551 583346009688 active site 583346009689 metal binding site [ion binding]; metal-binding site 583346009690 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 583346009691 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 583346009692 active site 583346009693 FMN binding site [chemical binding]; other site 583346009694 substrate binding site [chemical binding]; other site 583346009695 putative catalytic residue [active] 583346009696 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 583346009697 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 583346009698 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 583346009699 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 583346009700 GAF domain; Region: GAF; pfam01590 583346009701 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 583346009702 putative active site [active] 583346009703 heme pocket [chemical binding]; other site 583346009704 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 583346009705 Walker A motif; other site 583346009706 ATP binding site [chemical binding]; other site 583346009707 Walker B motif; other site 583346009708 arginine finger; other site 583346009709 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 583346009710 DNA polymerase IV; Validated; Region: PRK01810 583346009711 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 583346009712 active site 583346009713 DNA binding site [nucleotide binding] 583346009714 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 583346009715 dimerization interface [polypeptide binding]; other site 583346009716 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 583346009717 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 583346009718 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 583346009719 putative transposase OrfB; Reviewed; Region: PHA02517 583346009720 HTH-like domain; Region: HTH_21; pfam13276 583346009721 Integrase core domain; Region: rve; pfam00665 583346009722 Integrase core domain; Region: rve_2; pfam13333 583346009723 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 583346009724 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 583346009725 active site 583346009726 metal binding site [ion binding]; metal-binding site 583346009727 homotetramer interface [polypeptide binding]; other site 583346009728 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 583346009729 active site 583346009730 dimerization interface [polypeptide binding]; other site 583346009731 ribonuclease PH; Reviewed; Region: rph; PRK00173 583346009732 Ribonuclease PH; Region: RNase_PH_bact; cd11362 583346009733 hexamer interface [polypeptide binding]; other site 583346009734 active site 583346009735 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 583346009736 AIR synthase (PurM) related protein, subgroup 1 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like1; cd06061 583346009737 dimerization interface [polypeptide binding]; other site 583346009738 putative ATP binding site [chemical binding]; other site 583346009739 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 583346009740 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 583346009741 peptide binding site [polypeptide binding]; other site 583346009742 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 583346009743 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 583346009744 GatB domain; Region: GatB_Yqey; smart00845 583346009745 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 583346009746 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 583346009747 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 583346009748 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 583346009749 nucleophile elbow; other site 583346009750 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 583346009751 Radical SAM superfamily; Region: Radical_SAM; pfam04055 583346009752 FeS/SAM binding site; other site 583346009753 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 583346009754 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 583346009755 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 583346009756 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 583346009757 Predicted membrane protein [Function unknown]; Region: COG4905 583346009758 Protein of unknown function (DUF1113); Region: DUF1113; pfam06541 583346009759 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 583346009760 ABC1 family; Region: ABC1; pfam03109 583346009761 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 583346009762 active site 583346009763 ATP binding site [chemical binding]; other site 583346009764 Uncharacterized conserved protein [Function unknown]; Region: COG3937 583346009765 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346009766 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346009767 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 583346009768 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 583346009769 nucleotide binding pocket [chemical binding]; other site 583346009770 K-X-D-G motif; other site 583346009771 catalytic site [active] 583346009772 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 583346009773 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 583346009774 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 583346009775 Dimer interface [polypeptide binding]; other site 583346009776 BRCT sequence motif; other site 583346009777 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 583346009778 Part of AAA domain; Region: AAA_19; pfam13245 583346009779 Family description; Region: UvrD_C_2; pfam13538 583346009780 Trp repressor protein; Region: Trp_repressor; cl17266 583346009781 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 583346009782 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 583346009783 RNA binding surface [nucleotide binding]; other site 583346009784 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 583346009785 active site 583346009786 uracil binding [chemical binding]; other site 583346009787 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 583346009788 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 583346009789 N-acetyl-D-glucosamine binding site [chemical binding]; other site 583346009790 catalytic residue [active] 583346009791 triple tyrosine motif-containing protein; Provisional; Region: PRK14081 583346009792 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 583346009793 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 583346009794 pullulanase, type I; Region: pulA_typeI; TIGR02104 583346009795 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 583346009796 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 583346009797 Ca binding site [ion binding]; other site 583346009798 active site 583346009799 catalytic site [active] 583346009800 hypothetical protein; Validated; Region: PRK00124 583346009801 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 583346009802 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 583346009803 active site 583346009804 dimer interface [polypeptide binding]; other site 583346009805 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 583346009806 dimer interface [polypeptide binding]; other site 583346009807 active site 583346009808 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 583346009809 glucose-1-phosphate adenylyltransferase, GlgD subunit; Region: glgD; TIGR02092 583346009810 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 583346009811 ligand binding site; other site 583346009812 oligomer interface; other site 583346009813 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 583346009814 dimer interface [polypeptide binding]; other site 583346009815 N-terminal domain interface [polypeptide binding]; other site 583346009816 sulfate 1 binding site; other site 583346009817 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK05293 583346009818 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 583346009819 ligand binding site; other site 583346009820 oligomer interface; other site 583346009821 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 583346009822 dimer interface [polypeptide binding]; other site 583346009823 N-terminal domain interface [polypeptide binding]; other site 583346009824 sulfate 1 binding site; other site 583346009825 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 583346009826 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 583346009827 active site 583346009828 homodimer interface [polypeptide binding]; other site 583346009829 catalytic site [active] 583346009830 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 583346009831 homodimer interface [polypeptide binding]; other site 583346009832 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 583346009833 active site pocket [active] 583346009834 glycogen synthase; Provisional; Region: glgA; PRK00654 583346009835 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 583346009836 ADP-binding pocket [chemical binding]; other site 583346009837 homodimer interface [polypeptide binding]; other site 583346009838 glycogen branching enzyme; Provisional; Region: PRK12313 583346009839 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 583346009840 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 583346009841 active site 583346009842 catalytic site [active] 583346009843 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 583346009844 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 583346009845 Penicillinase repressor; Region: Pencillinase_R; cl17580 583346009846 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 583346009847 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 583346009848 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 583346009849 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 583346009850 MarR family; Region: MarR; pfam01047 583346009851 MarR family; Region: MarR_2; cl17246 583346009852 Lanthionine synthetase C-like protein; Region: LANC_like; pfam05147 583346009853 LanC-like proteins. LanC is the cyclase enzyme of the lanthionine synthetase. Lanthionine is a lantibiotic, a unique class of peptide antibiotics. They are ribosomally synthesized as a precursor peptide and then post-translationally modified to contain...; Region: LanC_like; cl04955 583346009854 active site 583346009855 zinc binding site [ion binding]; other site 583346009856 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 583346009857 putative substrate translocation pore; other site 583346009858 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346009859 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346009860 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 583346009861 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 583346009862 E3 interaction surface; other site 583346009863 lipoyl attachment site [posttranslational modification]; other site 583346009864 HlyD family secretion protein; Region: HlyD_3; pfam13437 583346009865 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 583346009866 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 583346009867 Walker A/P-loop; other site 583346009868 ATP binding site [chemical binding]; other site 583346009869 Q-loop/lid; other site 583346009870 ABC transporter signature motif; other site 583346009871 Walker B; other site 583346009872 D-loop; other site 583346009873 H-loop/switch region; other site 583346009874 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 583346009875 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 583346009876 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 583346009877 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 583346009878 active site 583346009879 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 583346009880 FAD binding domain; Region: FAD_binding_4; pfam01565 583346009881 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 583346009882 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 583346009883 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 583346009884 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 583346009885 Ligand binding site [chemical binding]; other site 583346009886 Electron transfer flavoprotein domain; Region: ETF; pfam01012 583346009887 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 583346009888 Domain of unknown function DUF21; Region: DUF21; pfam01595 583346009889 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 583346009890 Transporter associated domain; Region: CorC_HlyC; smart01091 583346009891 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 583346009892 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346009893 Walker A/P-loop; other site 583346009894 ATP binding site [chemical binding]; other site 583346009895 Q-loop/lid; other site 583346009896 ABC transporter signature motif; other site 583346009897 Walker B; other site 583346009898 D-loop; other site 583346009899 H-loop/switch region; other site 583346009900 Response regulator receiver domain; Region: Response_reg; pfam00072 583346009901 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 583346009902 active site 583346009903 phosphorylation site [posttranslational modification] 583346009904 intermolecular recognition site; other site 583346009905 dimerization interface [polypeptide binding]; other site 583346009906 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 583346009907 DNA binding site [nucleotide binding] 583346009908 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 583346009909 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 583346009910 ligand binding site [chemical binding]; other site 583346009911 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 583346009912 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 583346009913 Protein of unknown function (DUF2992); Region: DUF2992; pfam11208 583346009914 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 583346009915 tyrosyl-tRNA synthetase; Provisional; Region: PRK13354 583346009916 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 583346009917 active site 583346009918 HIGH motif; other site 583346009919 dimer interface [polypeptide binding]; other site 583346009920 KMSKS motif; other site 583346009921 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 583346009922 RNA binding surface [nucleotide binding]; other site 583346009923 Predicted permeases [General function prediction only]; Region: COG0730 583346009924 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 583346009925 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 583346009926 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 583346009927 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 583346009928 ABC-2 type transporter; Region: ABC2_membrane; cl17235 583346009929 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 583346009930 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346009931 Walker A/P-loop; other site 583346009932 ATP binding site [chemical binding]; other site 583346009933 Q-loop/lid; other site 583346009934 ABC transporter signature motif; other site 583346009935 Walker B; other site 583346009936 D-loop; other site 583346009937 H-loop/switch region; other site 583346009938 Protein of unknown function (DUF1048); Region: DUF1048; pfam06304 583346009939 Protein of unknown function (DUF1048); Region: DUF1048; pfam06304 583346009940 Protein of unknown function (DUF1048); Region: DUF1048; pfam06304 583346009941 Predicted transcriptional regulators [Transcription]; Region: COG1695 583346009942 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 583346009943 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 583346009944 FtsX-like permease family; Region: FtsX; pfam02687 583346009945 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 583346009946 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 583346009947 Walker A/P-loop; other site 583346009948 ATP binding site [chemical binding]; other site 583346009949 Q-loop/lid; other site 583346009950 ABC transporter signature motif; other site 583346009951 Walker B; other site 583346009952 D-loop; other site 583346009953 H-loop/switch region; other site 583346009954 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346009955 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 583346009956 ATP binding site [chemical binding]; other site 583346009957 Mg2+ binding site [ion binding]; other site 583346009958 G-X-G motif; other site 583346009959 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346009960 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 583346009961 active site 583346009962 phosphorylation site [posttranslational modification] 583346009963 intermolecular recognition site; other site 583346009964 dimerization interface [polypeptide binding]; other site 583346009965 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 583346009966 DNA binding site [nucleotide binding] 583346009967 Uncharacterized conserved protein related to pyruvate formate-lyase activating enzyme [General function prediction only]; Region: COG2108 583346009968 Protein of unknown function (DUF4085); Region: DUF4085; pfam13315 583346009969 FtsX-like permease family; Region: FtsX; pfam02687 583346009970 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 583346009971 FtsX-like permease family; Region: FtsX; pfam02687 583346009972 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 583346009973 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 583346009974 Walker A/P-loop; other site 583346009975 ATP binding site [chemical binding]; other site 583346009976 Q-loop/lid; other site 583346009977 ABC transporter signature motif; other site 583346009978 Walker B; other site 583346009979 D-loop; other site 583346009980 H-loop/switch region; other site 583346009981 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346009982 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 583346009983 dimer interface [polypeptide binding]; other site 583346009984 phosphorylation site [posttranslational modification] 583346009985 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 583346009986 ATP binding site [chemical binding]; other site 583346009987 Mg2+ binding site [ion binding]; other site 583346009988 G-X-G motif; other site 583346009989 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346009990 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 583346009991 active site 583346009992 phosphorylation site [posttranslational modification] 583346009993 intermolecular recognition site; other site 583346009994 dimerization interface [polypeptide binding]; other site 583346009995 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 583346009996 DNA binding site [nucleotide binding] 583346009997 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 583346009998 TRAM domain; Region: TRAM; cl01282 583346009999 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 583346010000 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 583346010001 S-adenosylmethionine binding site [chemical binding]; other site 583346010002 pyruvate kinase; Provisional; Region: PRK06354 583346010003 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 583346010004 domain interfaces; other site 583346010005 active site 583346010006 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 583346010007 6-phosphofructokinase; Provisional; Region: PRK03202 583346010008 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 583346010009 active site 583346010010 ADP/pyrophosphate binding site [chemical binding]; other site 583346010011 dimerization interface [polypeptide binding]; other site 583346010012 allosteric effector site; other site 583346010013 fructose-1,6-bisphosphate binding site; other site 583346010014 DNA polymerase III DnaE; Reviewed; Region: dnaE; PRK06826 583346010015 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 583346010016 active site 583346010017 PHP Thumb interface [polypeptide binding]; other site 583346010018 metal binding site [ion binding]; metal-binding site 583346010019 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 583346010020 generic binding surface II; other site 583346010021 generic binding surface I; other site 583346010022 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 583346010023 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 583346010024 DNA-binding site [nucleotide binding]; DNA binding site 583346010025 DRTGG domain; Region: DRTGG; pfam07085 583346010026 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 583346010027 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; cd03440 583346010028 active site 2 [active] 583346010029 active site 1 [active] 583346010030 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 583346010031 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 583346010032 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 583346010033 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 583346010034 phosphate binding site [ion binding]; other site 583346010035 putative substrate binding pocket [chemical binding]; other site 583346010036 dimer interface [polypeptide binding]; other site 583346010037 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 583346010038 AAA domain; Region: AAA_18; pfam13238 583346010039 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 583346010040 FAD binding domain; Region: FAD_binding_4; pfam01565 583346010041 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 583346010042 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 583346010043 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 583346010044 GIY-YIG motif/motif A; other site 583346010045 active site 583346010046 catalytic site [active] 583346010047 putative DNA binding site [nucleotide binding]; other site 583346010048 metal binding site [ion binding]; metal-binding site 583346010049 UvrB/uvrC motif; Region: UVR; pfam02151 583346010050 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 583346010051 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 583346010052 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 583346010053 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 583346010054 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 583346010055 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 583346010056 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 583346010057 phosphopeptide binding site; other site 583346010058 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 583346010059 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 583346010060 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 583346010061 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 583346010062 excinuclease ABC subunit B; Provisional; Region: PRK05298 583346010063 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 583346010064 ATP binding site [chemical binding]; other site 583346010065 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 583346010066 putative Mg++ binding site [ion binding]; other site 583346010067 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 583346010068 nucleotide binding region [chemical binding]; other site 583346010069 ATP-binding site [chemical binding]; other site 583346010070 Ultra-violet resistance protein B; Region: UvrB; pfam12344 583346010071 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 583346010072 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 583346010073 C-terminal peptidase (prc); Region: prc; TIGR00225 583346010074 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 583346010075 protein binding site [polypeptide binding]; other site 583346010076 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 583346010077 Catalytic dyad [active] 583346010078 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 583346010079 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 583346010080 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 583346010081 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346010082 Walker A/P-loop; other site 583346010083 ATP binding site [chemical binding]; other site 583346010084 Q-loop/lid; other site 583346010085 ABC transporter signature motif; other site 583346010086 Walker B; other site 583346010087 D-loop; other site 583346010088 H-loop/switch region; other site 583346010089 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 583346010090 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 583346010091 PYR/PP interface [polypeptide binding]; other site 583346010092 dimer interface [polypeptide binding]; other site 583346010093 TPP binding site [chemical binding]; other site 583346010094 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 583346010095 transketolase; Reviewed; Region: PRK05899 583346010096 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 583346010097 TPP-binding site [chemical binding]; other site 583346010098 dimer interface [polypeptide binding]; other site 583346010099 PemK-like protein; Region: PemK; pfam02452 583346010100 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 583346010101 alanine racemase; Reviewed; Region: alr; PRK00053 583346010102 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 583346010103 active site 583346010104 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 583346010105 dimer interface [polypeptide binding]; other site 583346010106 substrate binding site [chemical binding]; other site 583346010107 catalytic residues [active] 583346010108 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 583346010109 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 583346010110 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 583346010111 putative substrate binding site [chemical binding]; other site 583346010112 putative ATP binding site [chemical binding]; other site 583346010113 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 583346010114 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 583346010115 HPr interaction site; other site 583346010116 glycerol kinase (GK) interaction site [polypeptide binding]; other site 583346010117 active site 583346010118 phosphorylation site [posttranslational modification] 583346010119 spore cortex-lytic enzyme; Region: spore_SleB; TIGR02869 583346010120 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 583346010121 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 583346010122 MgtE intracellular N domain; Region: MgtE_N; smart00924 583346010123 FOG: CBS domain [General function prediction only]; Region: COG0517 583346010124 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 583346010125 putative lipid kinase; Reviewed; Region: PRK13059 583346010126 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 583346010127 FOG: CBS domain [General function prediction only]; Region: COG0517 583346010128 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 583346010129 FOG: CBS domain [General function prediction only]; Region: COG0517 583346010130 Uncharacterized conserved protein [Function unknown]; Region: COG0398 583346010131 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 583346010132 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 583346010133 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 583346010134 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 583346010135 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 583346010136 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 583346010137 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 583346010138 Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK); Region: UMPK_like; cd02028 583346010139 active site 583346010140 Predicted membrane protein [Function unknown]; Region: COG2323 583346010141 Domain of unknown function (DUF4363); Region: DUF4363; pfam14276 583346010142 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 583346010143 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 583346010144 intersubunit interface [polypeptide binding]; other site 583346010145 active site 583346010146 zinc binding site [ion binding]; other site 583346010147 Na+ binding site [ion binding]; other site 583346010148 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 583346010149 putative active site [active] 583346010150 putative triphosphate binding site [ion binding]; other site 583346010151 dimer interface [polypeptide binding]; other site 583346010152 putative metal binding residues [ion binding]; other site 583346010153 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 583346010154 HSP70 interaction site [polypeptide binding]; other site 583346010155 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 583346010156 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 583346010157 HIGH motif; other site 583346010158 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 583346010159 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 583346010160 active site 583346010161 KMSKS motif; other site 583346010162 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 583346010163 tRNA binding surface [nucleotide binding]; other site 583346010164 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 583346010165 synthetase active site [active] 583346010166 NTP binding site [chemical binding]; other site 583346010167 metal binding site [ion binding]; metal-binding site 583346010168 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1655 583346010169 Uncharacterized protein conserved in bacteria (DUF2225); Region: DUF2225; pfam09986 583346010170 Predicted phosphohydrolase [General function prediction only]; Region: COG1768 583346010171 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 583346010172 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 583346010173 Predicted membrane protein [Function unknown]; Region: COG3601 583346010174 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 583346010175 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 583346010176 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 583346010177 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 583346010178 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 583346010179 RNA binding site [nucleotide binding]; other site 583346010180 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 583346010181 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 583346010182 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 583346010183 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 583346010184 Walker A/P-loop; other site 583346010185 ATP binding site [chemical binding]; other site 583346010186 Q-loop/lid; other site 583346010187 ABC transporter signature motif; other site 583346010188 Walker B; other site 583346010189 D-loop; other site 583346010190 H-loop/switch region; other site 583346010191 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 583346010192 HlyD family secretion protein; Region: HlyD_3; pfam13437 583346010193 peptide chain release factor 2; Provisional; Region: PRK05589 583346010194 This domain is found in peptide chain release factors; Region: PCRF; smart00937 583346010195 RF-1 domain; Region: RF-1; pfam00472 583346010196 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 583346010197 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 583346010198 ATP binding site [chemical binding]; other site 583346010199 putative Mg++ binding site [ion binding]; other site 583346010200 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 583346010201 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; cl17351 583346010202 nucleotide binding region [chemical binding]; other site 583346010203 ATP-binding site [chemical binding]; other site 583346010204 SEC-C motif; Region: SEC-C; pfam02810 583346010205 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 583346010206 30S subunit binding site; other site 583346010207 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 583346010208 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 583346010209 homodimer interface [polypeptide binding]; other site 583346010210 substrate-cofactor binding pocket; other site 583346010211 catalytic residue [active] 583346010212 Phage integrase family; Region: Phage_integrase; pfam00589 583346010213 active site 583346010214 DNA binding site [nucleotide binding] 583346010215 Int/Topo IB signature motif; other site 583346010216 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 583346010217 Acyltransferase family; Region: Acyl_transf_3; pfam01757 583346010218 Small, acid-soluble spore proteins, alpha/beta type; Region: SASP; pfam00269 583346010219 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 583346010220 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 583346010221 UDP-galactopyranose mutase; Region: GLF; pfam03275 583346010222 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 583346010223 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 583346010224 active site 583346010225 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 583346010226 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 583346010227 active site 583346010228 GIY-YIG domain of LuxR and ArsR family transcriptional regulators, and uncharacterized hypothetical proteins found in bacteria; Region: GIY-YIG_LuxR_like; cd10451 583346010229 GIY-YIG motif/motif A; other site 583346010230 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 583346010231 non-specific DNA binding site [nucleotide binding]; other site 583346010232 salt bridge; other site 583346010233 sequence-specific DNA binding site [nucleotide binding]; other site 583346010234 4Fe-4S binding domain; Region: Fer4_5; pfam12801 583346010235 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 583346010236 Predicted permeases [General function prediction only]; Region: COG0701 583346010237 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 583346010238 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 583346010239 dimerization interface [polypeptide binding]; other site 583346010240 putative DNA binding site [nucleotide binding]; other site 583346010241 putative Zn2+ binding site [ion binding]; other site 583346010242 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346010243 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 583346010244 active site 583346010245 phosphorylation site [posttranslational modification] 583346010246 intermolecular recognition site; other site 583346010247 dimerization interface [polypeptide binding]; other site 583346010248 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 583346010249 DNA binding site [nucleotide binding] 583346010250 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 583346010251 dimerization interface [polypeptide binding]; other site 583346010252 Short C-terminal domain; Region: SHOCT; pfam09851 583346010253 Metal-dependent hydrolases of the beta-lactamase superfamily II [General function prediction only]; Region: COG1237 583346010254 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 583346010255 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 583346010256 dimerization interface [polypeptide binding]; other site 583346010257 active site 583346010258 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 583346010259 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 583346010260 trimerization site [polypeptide binding]; other site 583346010261 active site 583346010262 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 583346010263 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 583346010264 DNA binding residues [nucleotide binding] 583346010265 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 583346010266 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 583346010267 metal binding site 2 [ion binding]; metal-binding site 583346010268 putative DNA binding helix; other site 583346010269 metal binding site 1 [ion binding]; metal-binding site 583346010270 structural Zn2+ binding site [ion binding]; other site 583346010271 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 583346010272 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; pfam09719 583346010273 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 583346010274 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 583346010275 P loop nucleotide binding; other site 583346010276 switch II; other site 583346010277 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]; Region: COG1149 583346010278 This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion; Region: Fer4_NifH_child; cd03110 583346010279 switch II; other site 583346010280 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of...; Region: MTH1175; cd00851 583346010281 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 583346010282 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 583346010283 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 583346010284 EamA-like transporter family; Region: EamA; cl17759 583346010285 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 583346010286 EamA-like transporter family; Region: EamA; pfam00892 583346010287 Transcriptional regulator [Transcription]; Region: LysR; COG0583 583346010288 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 583346010289 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 583346010290 dimerization interface [polypeptide binding]; other site 583346010291 Sporozoite P67 surface antigen; Region: Sporozoite_P67; pfam05642 583346010292 Divergent AAA domain; Region: AAA_4; pfam04326 583346010293 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 583346010294 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 583346010295 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 583346010296 non-specific DNA binding site [nucleotide binding]; other site 583346010297 salt bridge; other site 583346010298 sequence-specific DNA binding site [nucleotide binding]; other site 583346010299 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 583346010300 Coenzyme A binding pocket [chemical binding]; other site 583346010301 YbaK / prolyl-tRNA synthetases associated domain; Region: YbaK; pfam04073 583346010302 putative deacylase active site [active] 583346010303 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 583346010304 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 583346010305 active site 583346010306 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 583346010307 AAA domain; Region: AAA_30; pfam13604 583346010308 Family description; Region: UvrD_C_2; pfam13538 583346010309 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346010310 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346010311 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 583346010312 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 583346010313 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 583346010314 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 583346010315 intersubunit interface [polypeptide binding]; other site 583346010316 S-adenosylmethionine synthetase; Validated; Region: PRK05250 583346010317 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 583346010318 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 583346010319 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 583346010320 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 583346010321 rod shape-determining protein Mbl; Provisional; Region: PRK13928 583346010322 MreB and similar proteins; Region: MreB_like; cd10225 583346010323 nucleotide binding site [chemical binding]; other site 583346010324 Mg binding site [ion binding]; other site 583346010325 putative protofilament interaction site [polypeptide binding]; other site 583346010326 RodZ interaction site [polypeptide binding]; other site 583346010327 Stage III sporulation protein D; Region: SpoIIID; pfam12116 583346010328 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 583346010329 Peptidase family M23; Region: Peptidase_M23; pfam01551 583346010330 stage II sporulation protein D; Region: spore_II_D; TIGR02870 583346010331 Stage II sporulation protein; Region: SpoIID; pfam08486 583346010332 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 583346010333 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 583346010334 hinge; other site 583346010335 active site 583346010336 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13450 583346010337 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 583346010338 gamma subunit interface [polypeptide binding]; other site 583346010339 epsilon subunit interface [polypeptide binding]; other site 583346010340 LBP interface [polypeptide binding]; other site 583346010341 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 583346010342 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 583346010343 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 583346010344 alpha subunit interaction interface [polypeptide binding]; other site 583346010345 Walker A motif; other site 583346010346 ATP binding site [chemical binding]; other site 583346010347 Walker B motif; other site 583346010348 inhibitor binding site; inhibition site 583346010349 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 583346010350 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 583346010351 core domain interface [polypeptide binding]; other site 583346010352 delta subunit interface [polypeptide binding]; other site 583346010353 epsilon subunit interface [polypeptide binding]; other site 583346010354 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 583346010355 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 583346010356 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 583346010357 beta subunit interaction interface [polypeptide binding]; other site 583346010358 Walker A motif; other site 583346010359 ATP binding site [chemical binding]; other site 583346010360 Walker B motif; other site 583346010361 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 583346010362 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 583346010363 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 583346010364 F0F1 ATP synthase subunit B; Provisional; Region: PRK13461 583346010365 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 583346010366 F0F1 ATP synthase subunit C; Provisional; Region: PRK13469 583346010367 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 583346010368 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 583346010369 putative acyltransferase; Provisional; Region: PRK05790 583346010370 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 583346010371 dimer interface [polypeptide binding]; other site 583346010372 active site 583346010373 putative acyltransferase; Provisional; Region: PRK05790 583346010374 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 583346010375 dimer interface [polypeptide binding]; other site 583346010376 active site 583346010377 putative acyltransferase; Provisional; Region: PRK05790 583346010378 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 583346010379 dimer interface [polypeptide binding]; other site 583346010380 active site 583346010381 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 583346010382 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 583346010383 active site 583346010384 homodimer interface [polypeptide binding]; other site 583346010385 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 583346010386 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 583346010387 Mg++ binding site [ion binding]; other site 583346010388 putative catalytic motif [active] 583346010389 substrate binding site [chemical binding]; other site 583346010390 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 583346010391 catalytic motif [active] 583346010392 Zn binding site [ion binding]; other site 583346010393 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 583346010394 active site 583346010395 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 583346010396 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 583346010397 Low molecular weight phosphatase family; Region: LMWPc; cd00115 583346010398 active site 583346010399 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 583346010400 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 583346010401 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 583346010402 peptide chain release factor 1; Validated; Region: prfA; PRK00591 583346010403 This domain is found in peptide chain release factors; Region: PCRF; smart00937 583346010404 RF-1 domain; Region: RF-1; pfam00472 583346010405 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 583346010406 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 583346010407 S-adenosylmethionine binding site [chemical binding]; other site 583346010408 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 583346010409 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 583346010410 transcription termination factor Rho; Provisional; Region: PRK12608 583346010411 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 583346010412 RNA binding site [nucleotide binding]; other site 583346010413 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 583346010414 multimer interface [polypeptide binding]; other site 583346010415 Walker A motif; other site 583346010416 ATP binding site [chemical binding]; other site 583346010417 Walker B motif; other site 583346010418 CTP synthetase; Validated; Region: pyrG; PRK05380 583346010419 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 583346010420 Catalytic site [active] 583346010421 active site 583346010422 UTP binding site [chemical binding]; other site 583346010423 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 583346010424 active site 583346010425 putative oxyanion hole; other site 583346010426 catalytic triad [active] 583346010427 Domain of unknown function (DUF1934); Region: DUF1934; pfam09148 583346010428 germination protein YpeB; Region: spore_YpeB; TIGR02889 583346010429 UDP-N-acetylglucosamine:LPS N-acetylglucosamine transferase [Cell envelope biogenesis, outer membrane]; Region: MurG; COG0707 583346010430 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 583346010431 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 583346010432 Stage II sporulation protein R (spore_II_R); Region: Spore_II_R; pfam09551 583346010433 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 583346010434 Spore germination protein; Region: Spore_permease; cl17796 583346010435 germination protein, Ger(x)C family; Region: spore_ger_x_C; TIGR02887 583346010436 Spore germination B3/ GerAC like, C-terminal; Region: Spore_GerAC; pfam05504 583346010437 Bacillus/Clostridium GerA spore germination protein; Region: GerA; pfam03323 583346010438 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 583346010439 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 583346010440 cyanophycin synthetase; Provisional; Region: PRK14016 583346010441 ATP-grasp domain; Region: ATP-grasp_4; cl17255 583346010442 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 583346010443 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 583346010444 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 583346010445 proposed catalytic triad [active] 583346010446 active site nucleophile [active] 583346010447 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 583346010448 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 583346010449 Domain of unknown function (DUF3794); Region: DUF3794; pfam12673 583346010450 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 583346010451 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 583346010452 Protein of unknown function (DUF1021); Region: DUF1021; pfam06257 583346010453 YabG peptidase U57; Region: Peptidase_U57; pfam05582 583346010454 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 583346010455 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 583346010456 active site 583346010457 ATP binding site [chemical binding]; other site 583346010458 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 583346010459 substrate binding site [chemical binding]; other site 583346010460 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 583346010461 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 583346010462 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 583346010463 dimerization interface [polypeptide binding]; other site 583346010464 putative DNA binding site [nucleotide binding]; other site 583346010465 putative Zn2+ binding site [ion binding]; other site 583346010466 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 583346010467 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 583346010468 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 583346010469 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 583346010470 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346010471 Walker A/P-loop; other site 583346010472 ATP binding site [chemical binding]; other site 583346010473 Q-loop/lid; other site 583346010474 ABC transporter signature motif; other site 583346010475 Walker B; other site 583346010476 D-loop; other site 583346010477 H-loop/switch region; other site 583346010478 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 583346010479 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 583346010480 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346010481 Walker A/P-loop; other site 583346010482 ATP binding site [chemical binding]; other site 583346010483 Q-loop/lid; other site 583346010484 ABC transporter signature motif; other site 583346010485 Walker B; other site 583346010486 D-loop; other site 583346010487 H-loop/switch region; other site 583346010488 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346010489 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346010490 Putative cell wall binding repeat 2; Region: CW_binding_2; pfam04122 583346010491 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 583346010492 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 583346010493 substrate binding site [chemical binding]; other site 583346010494 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 583346010495 spore coat protein, CotS family; Region: spore_CotS; TIGR02906 583346010496 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 583346010497 active site 583346010498 ATP binding site [chemical binding]; other site 583346010499 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 583346010500 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 583346010501 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 583346010502 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 583346010503 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 583346010504 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 583346010505 FeS/SAM binding site; other site 583346010506 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 583346010507 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 583346010508 active site 583346010509 DNA binding site [nucleotide binding] 583346010510 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 583346010511 GIY-YIG motif/motif A; other site 583346010512 putative active site [active] 583346010513 putative metal binding site [ion binding]; other site 583346010514 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 583346010515 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 583346010516 Substrate binding site; other site 583346010517 Cupin domain; Region: Cupin_2; cl17218 583346010518 AAA domain; Region: AAA_11; pfam13086 583346010519 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; cd01983 583346010520 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 583346010521 AAA domain; Region: AAA_12; pfam13087 583346010522 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 583346010523 putative active site [active] 583346010524 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 583346010525 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 583346010526 phosphoenolpyruvate synthase; Validated; Region: PRK06241 583346010527 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 583346010528 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 583346010529 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 583346010530 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 583346010531 Transcriptional regulators [Transcription]; Region: PurR; COG1609 583346010532 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 583346010533 DNA binding site [nucleotide binding] 583346010534 domain linker motif; other site 583346010535 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 583346010536 dimerization interface [polypeptide binding]; other site 583346010537 ligand binding site [chemical binding]; other site 583346010538 Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: IleS; COG0060 583346010539 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 583346010540 HIGH motif; other site 583346010541 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 583346010542 active site 583346010543 KMSKS motif; other site 583346010544 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 583346010545 tRNA binding surface [nucleotide binding]; other site 583346010546 anticodon binding site; other site 583346010547 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 583346010548 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 583346010549 active site 583346010550 metal binding site [ion binding]; metal-binding site 583346010551 Bacterial Ig-like domain (group 4); Region: Big_4; pfam07532 583346010552 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 583346010553 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 583346010554 active site 583346010555 metal binding site [ion binding]; metal-binding site 583346010556 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 583346010557 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 583346010558 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 583346010559 dimerization interface [polypeptide binding]; other site 583346010560 putative DNA binding site [nucleotide binding]; other site 583346010561 putative Zn2+ binding site [ion binding]; other site 583346010562 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 583346010563 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 583346010564 FeS/SAM binding site; other site 583346010565 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK07111 583346010566 ATP cone domain; Region: ATP-cone; pfam03477 583346010567 Class III ribonucleotide reductase; Region: RNR_III; cd01675 583346010568 effector binding site; other site 583346010569 active site 583346010570 Zn binding site [ion binding]; other site 583346010571 glycine loop; other site 583346010572 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 583346010573 OsmC-like protein; Region: OsmC; cl00767 583346010574 heat shock protein 70; Region: dnaK; CHL00094 583346010575 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 583346010576 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 583346010577 S-adenosylmethionine binding site [chemical binding]; other site 583346010578 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 583346010579 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 583346010580 putative active site [active] 583346010581 putative metal binding site [ion binding]; other site 583346010582 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 583346010583 Domain of unknown function (DUF348); Region: DUF348; pfam03990 583346010584 Domain of unknown function (DUF348); Region: DUF348; pfam03990 583346010585 G5 domain; Region: G5; pfam07501 583346010586 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3584 583346010587 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 583346010588 active site 583346010589 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 583346010590 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 583346010591 HIGH motif; other site 583346010592 active site 583346010593 KMSKS motif; other site 583346010594 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 583346010595 tRNA binding surface [nucleotide binding]; other site 583346010596 anticodon binding site; other site 583346010597 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 583346010598 dimer interface [polypeptide binding]; other site 583346010599 putative tRNA-binding site [nucleotide binding]; other site 583346010600 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 583346010601 Fe-S cluster binding site [ion binding]; other site 583346010602 active site 583346010603 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 583346010604 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 583346010605 Bacterial Ig-like domain; Region: Big_5; pfam13205 583346010606 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 583346010607 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 583346010608 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 583346010609 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 583346010610 putative active site [active] 583346010611 putative metal binding site [ion binding]; other site 583346010612 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 583346010613 homotrimer interaction site [polypeptide binding]; other site 583346010614 zinc binding site [ion binding]; other site 583346010615 CDP-binding sites; other site 583346010616 Domain of unknown function (DUF1836); Region: DUF1836; pfam08876 583346010617 HSF-type DNA-binding; Region: HSF_DNA-bind; cl12113 583346010618 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 583346010619 Transposase; Region: DEDD_Tnp_IS110; pfam01548 583346010620 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 583346010621 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 583346010622 desulfoferrodoxin; Region: dfx_rbo; TIGR00320 583346010623 Desulforedoxin (DSRD) domain; a small non-heme iron domain present in the desulforedoxin (rubredoxin oxidoreductase) and desulfoferrodoxin proteins of some archeael and bacterial methanogens and sulfate/sulfur reducers. Desulforedoxin is a small; Region: DSRD; cd00974 583346010624 non-heme iron binding site [ion binding]; other site 583346010625 dimer interface [polypeptide binding]; other site 583346010626 Superoxide reductase-like (SORL) domain, class I; SORL-domains are present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals...; Region: SORL_Dfx_classI; cd03171 583346010627 non-heme iron binding site [ion binding]; other site 583346010628 dimer interface [polypeptide binding]; other site 583346010629 Rubrerythrin [Energy production and conversion]; Region: COG1592 583346010630 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 583346010631 binuclear metal center [ion binding]; other site 583346010632 Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and...; Region: rubredoxin_SM; cd00729 583346010633 iron binding site [ion binding]; other site 583346010634 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 583346010635 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 583346010636 active site 583346010637 NTP binding site [chemical binding]; other site 583346010638 metal binding triad [ion binding]; metal-binding site 583346010639 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 583346010640 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 583346010641 Zn2+ binding site [ion binding]; other site 583346010642 Mg2+ binding site [ion binding]; other site 583346010643 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 583346010644 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 583346010645 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 583346010646 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 583346010647 NlpC/P60 family; Region: NLPC_P60; pfam00877 583346010648 Predicted methyltransferases [General function prediction only]; Region: COG0313 583346010649 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 583346010650 putative SAM binding site [chemical binding]; other site 583346010651 putative homodimer interface [polypeptide binding]; other site 583346010652 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 583346010653 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 583346010654 S-adenosylmethionine binding site [chemical binding]; other site 583346010655 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 583346010656 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 583346010657 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 583346010658 ligand binding site [chemical binding]; other site 583346010659 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 583346010660 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 583346010661 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 583346010662 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 583346010663 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; cl00207 583346010664 Uncharacterized homolog of PSP1 [Function unknown]; Region: COG1774 583346010665 DNA polymerase III subunit delta'; Validated; Region: PRK05564 583346010666 DNA polymerase III subunit delta'; Validated; Region: PRK08485 583346010667 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 583346010668 Protein of unknown function (DUF970); Region: DUF970; cl17525 583346010669 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 583346010670 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 583346010671 TMP-binding site; other site 583346010672 ATP-binding site [chemical binding]; other site 583346010673 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 583346010674 Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine...; Region: Orn_deC_like; cd00615 583346010675 homodimer interface [polypeptide binding]; other site 583346010676 pyridoxal 5'-phosphate binding site [chemical binding]; other site 583346010677 catalytic residue [active] 583346010678 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 583346010679 Inhibitor of sigma-G Gin; Region: Gin; pfam10764 583346010680 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 583346010681 uncharacterized bacterial subfamily of the Escherichia coli CorA-Salmonella typhimurium ZntB family; Region: EcCorA_ZntB-like_u2; cd12827 583346010682 Cl binding site [ion binding]; other site 583346010683 oligomer interface [polypeptide binding]; other site 583346010684 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 583346010685 dimer interface [polypeptide binding]; other site 583346010686 catalytic triad [active] 583346010687 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 583346010688 NAD-dependent deacetylase; Provisional; Region: PRK00481 583346010689 SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2-fam; cd01407 583346010690 NAD+ binding site [chemical binding]; other site 583346010691 substrate binding site [chemical binding]; other site 583346010692 Zn binding site [ion binding]; other site 583346010693 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 583346010694 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 583346010695 catalytic residue [active] 583346010696 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 583346010697 Fe-S cluster binding site [ion binding]; other site 583346010698 active site 583346010699 Predicted integral membrane protein [Function unknown]; Region: COG5652 583346010700 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 583346010701 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 583346010702 oligomer interface [polypeptide binding]; other site 583346010703 active site 583346010704 metal binding site [ion binding]; metal-binding site 583346010705 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 583346010706 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 583346010707 oligomer interface [polypeptide binding]; other site 583346010708 active site 583346010709 metal binding site [ion binding]; metal-binding site 583346010710 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 583346010711 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 583346010712 oligomer interface [polypeptide binding]; other site 583346010713 active site 583346010714 metal binding site [ion binding]; metal-binding site 583346010715 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 583346010716 Uncharacterized conserved protein [Function unknown]; Region: COG4198 583346010717 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 583346010718 Phosphoglycerate dehydrogenase (PGDH) NAD-binding and catalytic domains; Region: PGDH_2; cd05303 583346010719 putative ligand binding site [chemical binding]; other site 583346010720 NAD binding site [chemical binding]; other site 583346010721 dimerization interface [polypeptide binding]; other site 583346010722 catalytic site [active] 583346010723 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 583346010724 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 583346010725 catalytic residue [active] 583346010726 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 583346010727 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 583346010728 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 583346010729 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 583346010730 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 583346010731 putative NADH binding site [chemical binding]; other site 583346010732 putative active site [active] 583346010733 nudix motif; other site 583346010734 putative metal binding site [ion binding]; other site 583346010735 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 583346010736 SigmaK-factor processing regulatory protein BofA; Region: BofA; cl06466 583346010737 recombination protein RecR; Reviewed; Region: recR; PRK00076 583346010738 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 583346010739 helix-hairpin-helix signature motif; other site 583346010740 RecR protein; Region: RecR; pfam02132 583346010741 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 583346010742 putative active site [active] 583346010743 putative metal-binding site [ion binding]; other site 583346010744 tetramer interface [polypeptide binding]; other site 583346010745 hypothetical protein; Validated; Region: PRK00153 583346010746 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 583346010747 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 583346010748 Walker A motif; other site 583346010749 ATP binding site [chemical binding]; other site 583346010750 Walker B motif; other site 583346010751 arginine finger; other site 583346010752 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 583346010753 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 583346010754 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 583346010755 FeS/SAM binding site; other site 583346010756 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 583346010757 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 583346010758 S-adenosylmethionine binding site [chemical binding]; other site 583346010759 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 583346010760 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 583346010761 catalytic residues [active] 583346010762 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 583346010763 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 583346010764 Walker A motif; other site 583346010765 ATP binding site [chemical binding]; other site 583346010766 Walker B motif; other site 583346010767 arginine finger; other site 583346010768 Transposase; Region: DEDD_Tnp_IS110; pfam01548 583346010769 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 583346010770 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 583346010771 FRG domain; Region: FRG; pfam08867 583346010772 Helix-turn-helix domain; Region: HTH_17; pfam12728 583346010773 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 583346010774 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 583346010775 catalytic residues [active] 583346010776 Recombinase; Region: Recombinase; pfam07508 583346010777 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 583346010778 Recombinase; Region: Recombinase; pfam07508 583346010779 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 583346010780 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 583346010781 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 583346010782 catalytic residues [active] 583346010783 catalytic nucleophile [active] 583346010784 Recombinase; Region: Recombinase; pfam07508 583346010785 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 583346010786 PemK-like protein; Region: PemK; pfam02452 583346010787 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 583346010788 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 583346010789 DNA binding residues [nucleotide binding] 583346010790 Predicted transcriptional regulators [Transcription]; Region: COG1725 583346010791 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 583346010792 DNA-binding site [nucleotide binding]; DNA binding site 583346010793 lipoprotein transporter ATP-binding subunit; Provisional; Region: lolD; PRK11629 583346010794 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346010795 Walker A/P-loop; other site 583346010796 ATP binding site [chemical binding]; other site 583346010797 Q-loop/lid; other site 583346010798 ABC transporter signature motif; other site 583346010799 Walker B; other site 583346010800 D-loop; other site 583346010801 H-loop/switch region; other site 583346010802 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 583346010803 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 583346010804 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 583346010805 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 583346010806 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 583346010807 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 583346010808 Walker A/P-loop; other site 583346010809 ATP binding site [chemical binding]; other site 583346010810 Q-loop/lid; other site 583346010811 ABC transporter signature motif; other site 583346010812 Walker B; other site 583346010813 D-loop; other site 583346010814 H-loop/switch region; other site 583346010815 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 583346010816 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 583346010817 dimer interface [polypeptide binding]; other site 583346010818 phosphorylation site [posttranslational modification] 583346010819 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 583346010820 ATP binding site [chemical binding]; other site 583346010821 Mg2+ binding site [ion binding]; other site 583346010822 G-X-G motif; other site 583346010823 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 583346010824 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 583346010825 active site 583346010826 phosphorylation site [posttranslational modification] 583346010827 intermolecular recognition site; other site 583346010828 dimerization interface [polypeptide binding]; other site 583346010829 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 583346010830 DNA binding site [nucleotide binding] 583346010831 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 583346010832 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 583346010833 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 583346010834 Methyltransferase domain; Region: Methyltransf_31; pfam13847 583346010835 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 583346010836 S-adenosylmethionine binding site [chemical binding]; other site 583346010837 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 583346010838 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 583346010839 non-specific DNA binding site [nucleotide binding]; other site 583346010840 salt bridge; other site 583346010841 sequence-specific DNA binding site [nucleotide binding]; other site 583346010842 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 583346010843 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 583346010844 Walker A motif; other site 583346010845 ATP binding site [chemical binding]; other site 583346010846 Walker B motif; other site 583346010847 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 583346010848 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 583346010849 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 583346010850 active site 583346010851 metal binding site [ion binding]; metal-binding site 583346010852 interdomain interaction site; other site 583346010853 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 583346010854 Sel1-like repeats; Region: SEL1; smart00671 583346010855 Sel1-like repeats; Region: SEL1; smart00671 583346010856 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 583346010857 Sel1-like repeats; Region: SEL1; smart00671 583346010858 Sel1-like repeats; Region: SEL1; smart00671 583346010859 Sel1-like repeats; Region: SEL1; smart00671 583346010860 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 583346010861 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 583346010862 DNA binding residues [nucleotide binding] 583346010863 dimer interface [polypeptide binding]; other site 583346010864 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 583346010865 Coenzyme A binding pocket [chemical binding]; other site 583346010866 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 583346010867 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 583346010868 Coenzyme A binding pocket [chemical binding]; other site 583346010869 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 583346010870 Peptidase family M23; Region: Peptidase_M23; pfam01551 583346010871 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 583346010872 AAA-like domain; Region: AAA_10; pfam12846 583346010873 Domain of unknown function DUF87; Region: DUF87; pfam01935 583346010874 SnoaL-like domain; Region: SnoaL_2; pfam12680 583346010875 Protein of unknown function (DUF3852); Region: DUF3852; pfam12963 583346010876 Domain of unknown function (DUF4320); Region: DUF4320; pfam14208 583346010877 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 583346010878 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 583346010879 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 583346010880 Walker A motif; other site 583346010881 ATP binding site [chemical binding]; other site 583346010882 Walker B motif; other site 583346010883 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 583346010884 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 583346010885 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 583346010886 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 583346010887 SpoVG; Region: SpoVG; pfam04026 583346010888 YodL-like; Region: YodL; pfam14191 583346010889 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 583346010890 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 583346010891 Domain of unknown function (DUF4314); Region: DUF4314; pfam14192 583346010892 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 583346010893 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 583346010894 putative dimer interface [polypeptide binding]; other site 583346010895 replicative DNA helicase; Provisional; Region: PRK05595 583346010896 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 583346010897 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 583346010898 Walker A motif; other site 583346010899 ATP binding site [chemical binding]; other site 583346010900 Walker B motif; other site 583346010901 DNA binding loops [nucleotide binding] 583346010902 ATP-dependent protease, Lon family; Region: spore_lon_C; TIGR02903 583346010903 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 583346010904 Walker A motif; other site 583346010905 ATP binding site [chemical binding]; other site 583346010906 Walker B motif; other site 583346010907 arginine finger; other site 583346010908 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 583346010909 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 583346010910 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 583346010911 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 583346010912 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 583346010913 DHH family; Region: DHH; pfam01368 583346010914 DHHA1 domain; Region: DHHA1; pfam02272 583346010915 Predicted membrane protein (DUF2232); Region: DUF2232; pfam09991 583346010916 MazG-like family; Region: MazG-like; pfam12643 583346010917 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 583346010918 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 583346010919 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 583346010920 dimer interface [polypeptide binding]; other site 583346010921 ssDNA binding site [nucleotide binding]; other site 583346010922 tetramer (dimer of dimers) interface [polypeptide binding]; other site 583346010923 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 583346010924 Bacterial protein of unknown function (DUF951); Region: DUF951; pfam06107 583346010925 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 583346010926 Mechanosensitive ion channel; Region: MS_channel; pfam00924 583346010927 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 583346010928 Protein of unknown function (DUF1256); Region: DUF1256; cl06087 583346010929 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 583346010930 ParB-like nuclease domain; Region: ParBc; pfam02195 583346010931 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 583346010932 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 583346010933 Magnesium ion binding site [ion binding]; other site 583346010934 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 583346010935 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 583346010936 putative active site [active] 583346010937 putative NTP binding site [chemical binding]; other site 583346010938 putative nucleic acid binding site [nucleotide binding]; other site 583346010939 Type II intron maturase; Region: Intron_maturas2; pfam01348 583346010940 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 583346010941 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 583346010942 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 583346010943 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 583346010944 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 583346010945 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 583346010946 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 583346010947 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 583346010948 trmE is a tRNA modification GTPase; Region: trmE; cd04164 583346010949 G1 box; other site 583346010950 GTP/Mg2+ binding site [chemical binding]; other site 583346010951 Switch I region; other site 583346010952 G2 box; other site 583346010953 Switch II region; other site 583346010954 G3 box; other site 583346010955 G4 box; other site 583346010956 G5 box; other site 583346010957 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 583346010958 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 583346010959 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 583346010960 G-X-X-G motif; other site 583346010961 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 583346010962 RxxxH motif; other site 583346010963 putative inner membrane protein translocase component YidC; Provisional; Region: PRK00145 583346010964 Haemolytic domain; Region: Haemolytic; pfam01809 583346010965 ribonuclease P; Reviewed; Region: rnpA; PRK00499 583346010966 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399