-- dump date 20140619_021240 -- class Genbank::misc_feature -- table misc_feature_note -- id note 360104000001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 360104000002 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 360104000003 active site 360104000004 metal binding site [ion binding]; metal-binding site 360104000005 interdomain interaction site; other site 360104000006 ParA-like protein; Provisional; Region: PHA02518 360104000007 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 360104000008 P-loop; other site 360104000009 Magnesium ion binding site [ion binding]; other site 360104000010 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 360104000011 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 360104000012 haemagglutination activity domain; Region: Haemagg_act; pfam05860 360104000013 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 360104000014 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 360104000015 putative metal binding site [ion binding]; other site 360104000016 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 360104000017 Abi-like protein; Region: Abi_2; pfam07751 360104000018 HipA N-terminal domain; Region: Couple_hipA; cl11853 360104000019 HipA-like N-terminal domain; Region: HipA_N; pfam07805 360104000020 HipA-like C-terminal domain; Region: HipA_C; pfam07804 360104000021 YcfA-like protein; Region: YcfA; cl00752 360104000022 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 360104000023 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 360104000024 active site 360104000025 DNA binding site [nucleotide binding] 360104000026 Int/Topo IB signature motif; other site 360104000027 HipA-like C-terminal domain; Region: HipA_C; pfam07804 360104000028 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 360104000029 Initiator Replication protein; Region: Rep_3; pfam01051 360104000030 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 360104000031 Integrase; Region: Integrase_1; pfam12835 360104000032 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 360104000033 putative active site [active] 360104000034 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 360104000035 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 360104000036 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 360104000037 DnaA N-terminal domain; Region: DnaA_N; pfam11638 360104000038 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 360104000039 Walker A motif; other site 360104000040 ATP binding site [chemical binding]; other site 360104000041 Walker B motif; other site 360104000042 arginine finger; other site 360104000043 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 360104000044 DnaA box-binding interface [nucleotide binding]; other site 360104000045 DNA polymerase III subunit beta; Validated; Region: PRK05643 360104000046 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 360104000047 putative DNA binding surface [nucleotide binding]; other site 360104000048 dimer interface [polypeptide binding]; other site 360104000049 beta-clamp/clamp loader binding surface; other site 360104000050 beta-clamp/translesion DNA polymerase binding surface; other site 360104000051 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 360104000052 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 360104000053 Mg2+ binding site [ion binding]; other site 360104000054 G-X-G motif; other site 360104000055 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 360104000056 anchoring element; other site 360104000057 dimer interface [polypeptide binding]; other site 360104000058 ATP binding site [chemical binding]; other site 360104000059 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 360104000060 active site 360104000061 putative metal-binding site [ion binding]; other site 360104000062 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 360104000063 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 360104000064 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 360104000065 HD domain; Region: HD_3; pfam13023 360104000066 RDD family; Region: RDD; pfam06271 360104000067 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 360104000068 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 360104000069 dimerization interface [polypeptide binding]; other site 360104000070 putative ATP binding site [chemical binding]; other site 360104000071 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 360104000072 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 360104000073 CoA-binding site [chemical binding]; other site 360104000074 ATP-binding [chemical binding]; other site 360104000075 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 360104000076 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 360104000077 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 360104000078 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 360104000079 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 360104000080 23S rRNA binding site [nucleotide binding]; other site 360104000081 L21 binding site [polypeptide binding]; other site 360104000082 L13 binding site [polypeptide binding]; other site 360104000083 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 360104000084 Peptidase family C69; Region: Peptidase_C69; cl17793 360104000085 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 360104000086 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; cl00246 360104000087 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 360104000088 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 360104000089 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 360104000090 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 360104000091 amino acid carrier protein; Region: agcS; TIGR00835 360104000092 recombination factor protein RarA; Reviewed; Region: PRK13342 360104000093 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 360104000094 Walker A motif; other site 360104000095 ATP binding site [chemical binding]; other site 360104000096 Walker B motif; other site 360104000097 arginine finger; other site 360104000098 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 360104000099 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 360104000100 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 360104000101 ligand binding site [chemical binding]; other site 360104000102 active site 360104000103 UGI interface [polypeptide binding]; other site 360104000104 catalytic site [active] 360104000105 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 360104000106 putative deacylase active site [active] 360104000107 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 360104000108 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 360104000109 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 360104000110 active site 360104000111 dimer interface [polypeptide binding]; other site 360104000112 motif 1; other site 360104000113 motif 2; other site 360104000114 motif 3; other site 360104000115 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 360104000116 anticodon binding site; other site 360104000117 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 360104000118 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 360104000119 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 360104000120 glutamate dehydrogenase; Provisional; Region: PRK09414 360104000121 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 360104000122 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 360104000123 NAD(P) binding site [chemical binding]; other site 360104000124 SMI1 / KNR4 family; Region: SMI1_KNR4; smart00860 360104000125 PQQ-like domain; Region: PQQ_2; pfam13360 360104000126 YWTD domain; Region: YWTD; pfam13570 360104000127 acetyl-CoA carboxylase subunit A; Validated; Region: PRK08463 360104000128 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360104000129 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360104000130 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 360104000131 TM2 domain; Region: TM2; pfam05154 360104000132 Short C-terminal domain; Region: SHOCT; pfam09851 360104000133 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 360104000134 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 360104000135 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 360104000136 active site 360104000137 substrate binding site [chemical binding]; other site 360104000138 metal binding site [ion binding]; metal-binding site 360104000139 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 360104000140 peptide chain release factor 1; Validated; Region: prfA; PRK00591 360104000141 This domain is found in peptide chain release factors; Region: PCRF; smart00937 360104000142 RF-1 domain; Region: RF-1; pfam00472 360104000143 TOBE domain; Region: TOBE; cl01440 360104000144 TOBE domain; Region: TOBE; cl01440 360104000145 L-aspartate oxidase; Provisional; Region: PRK06175 360104000146 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 360104000147 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 360104000148 putative DNA binding site [nucleotide binding]; other site 360104000149 dimerization interface [polypeptide binding]; other site 360104000150 putative Zn2+ binding site [ion binding]; other site 360104000151 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 360104000152 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 360104000153 putative catalytic site [active] 360104000154 putative metal binding site [ion binding]; other site 360104000155 putative phosphate binding site [ion binding]; other site 360104000156 Predicted membrane protein [Function unknown]; Region: COG1971 360104000157 Domain of unknown function DUF; Region: DUF204; pfam02659 360104000158 Domain of unknown function DUF; Region: DUF204; pfam02659 360104000159 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 360104000160 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 360104000161 EamA-like transporter family; Region: EamA; pfam00892 360104000162 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 360104000163 Methyltransferase domain; Region: Methyltransf_31; pfam13847 360104000164 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 360104000165 S-adenosylmethionine binding site [chemical binding]; other site 360104000166 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 360104000167 active site 360104000168 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 360104000169 metal binding site 2 [ion binding]; metal-binding site 360104000170 putative DNA binding helix; other site 360104000171 metal binding site 1 [ion binding]; metal-binding site 360104000172 dimer interface [polypeptide binding]; other site 360104000173 structural Zn2+ binding site [ion binding]; other site 360104000174 Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: ZntC; cd01018 360104000175 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 360104000176 putative metal binding residues [ion binding]; other site 360104000177 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 360104000178 High-affinity nickel-transport protein; Region: NicO; cl00964 360104000179 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 360104000180 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 360104000181 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 360104000182 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 360104000183 putative PBP binding regions; other site 360104000184 ABC-ATPase subunit interface; other site 360104000185 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_5; cd13145 360104000186 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 360104000187 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 360104000188 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 360104000189 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 360104000190 active site 360104000191 substrate binding site [chemical binding]; other site 360104000192 cosubstrate binding site; other site 360104000193 catalytic site [active] 360104000194 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 360104000195 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 360104000196 putative substrate binding site [chemical binding]; other site 360104000197 putative ATP binding site [chemical binding]; other site 360104000198 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 360104000199 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 360104000200 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 360104000201 Walker A motif; other site 360104000202 ATP binding site [chemical binding]; other site 360104000203 Walker B motif; other site 360104000204 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 360104000205 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 360104000206 active site 360104000207 catalytic residues [active] 360104000208 metal binding site [ion binding]; metal-binding site 360104000209 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360104000210 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104000211 metal binding site [ion binding]; metal-binding site 360104000212 active site 360104000213 I-site; other site 360104000214 Clp protease; Region: CLP_protease; pfam00574 360104000215 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 360104000216 oligomer interface [polypeptide binding]; other site 360104000217 active site residues [active] 360104000218 trigger factor; Provisional; Region: tig; PRK01490 360104000219 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 360104000220 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 360104000221 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 360104000222 homodecamer interface [polypeptide binding]; other site 360104000223 GTP cyclohydrolase I; Provisional; Region: PLN03044 360104000224 active site 360104000225 putative catalytic site residues [active] 360104000226 zinc binding site [ion binding]; other site 360104000227 GTP-CH-I/GFRP interaction surface; other site 360104000228 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 360104000229 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 360104000230 Walker A motif/ATP binding site; other site 360104000231 Walker B motif; other site 360104000232 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 360104000233 Predicted ATPase [General function prediction only]; Region: COG4637 360104000234 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360104000235 Walker A/P-loop; other site 360104000236 ATP binding site [chemical binding]; other site 360104000237 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 360104000238 ABC transporter signature motif; other site 360104000239 Walker B; other site 360104000240 D-loop; other site 360104000241 H-loop/switch region; other site 360104000242 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 360104000243 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 360104000244 Walker A motif; other site 360104000245 ATP binding site [chemical binding]; other site 360104000246 Walker B motif; other site 360104000247 arginine finger; other site 360104000248 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 360104000249 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 360104000250 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 360104000251 acyl-activating enzyme (AAE) consensus motif; other site 360104000252 AMP binding site [chemical binding]; other site 360104000253 active site 360104000254 CoA binding site [chemical binding]; other site 360104000255 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 360104000256 PAS domain; Region: PAS_9; pfam13426 360104000257 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 360104000258 putative active site [active] 360104000259 heme pocket [chemical binding]; other site 360104000260 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 360104000261 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 360104000262 His-Xaa-Ser system putative quinone modification maturase; Region: SAM_quin_mod; TIGR03981 360104000263 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 360104000264 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 360104000265 molybdopterin cofactor binding site; other site 360104000266 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 360104000267 molybdopterin cofactor binding site; other site 360104000268 Dihaem cytochrome c; Region: DHC; pfam09626 360104000269 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12812 360104000270 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 360104000271 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 360104000272 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 360104000273 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 360104000274 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 360104000275 G1 box; other site 360104000276 putative GEF interaction site [polypeptide binding]; other site 360104000277 GTP/Mg2+ binding site [chemical binding]; other site 360104000278 Switch I region; other site 360104000279 G2 box; other site 360104000280 G3 box; other site 360104000281 Switch II region; other site 360104000282 G4 box; other site 360104000283 G5 box; other site 360104000284 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 360104000285 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 360104000286 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 360104000287 EamA-like transporter family; Region: EamA; pfam00892 360104000288 EamA-like transporter family; Region: EamA; pfam00892 360104000289 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 360104000290 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 360104000291 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 360104000292 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 360104000293 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Thermotoga marina NorM; Region: MATE_NorM_like; cd13137 360104000294 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 360104000295 benzoyl-CoA reductase, subunit C; Region: benz_CoA_red_C; TIGR02263 360104000296 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 360104000297 amidophosphoribosyltransferase; Provisional; Region: PRK08525 360104000298 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 360104000299 active site 360104000300 tetramer interface [polypeptide binding]; other site 360104000301 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360104000302 active site 360104000303 dihydrodipicolinate reductase; Provisional; Region: PRK00048 360104000304 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 360104000305 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 360104000306 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 360104000307 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 360104000308 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360104000309 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 360104000310 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360104000311 catalytic residues [active] 360104000312 hypothetical protein; Reviewed; Region: PRK12497 360104000313 homoserine dehydrogenase; Provisional; Region: PRK06349 360104000314 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 360104000315 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 360104000316 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 360104000317 aspartate aminotransferase; Provisional; Region: PRK08636 360104000318 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 360104000319 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104000320 homodimer interface [polypeptide binding]; other site 360104000321 catalytic residue [active] 360104000322 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 360104000323 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 360104000324 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 360104000325 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 360104000326 Predicted methyltransferases [General function prediction only]; Region: COG0313 360104000327 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 360104000328 putative SAM binding site [chemical binding]; other site 360104000329 putative homodimer interface [polypeptide binding]; other site 360104000330 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 360104000331 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 360104000332 RNA methyltransferase, RsmE family; Region: TIGR00046 360104000333 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 360104000334 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 360104000335 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 360104000336 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 360104000337 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 360104000338 FeS/SAM binding site; other site 360104000339 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 360104000340 prenyltransferase; Reviewed; Region: ubiA; PRK12874 360104000341 UbiA prenyltransferase family; Region: UbiA; pfam01040 360104000342 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 360104000343 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 360104000344 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 360104000345 Fe-S cluster assembly protein NifU; Region: NifU_proper; TIGR02000 360104000346 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 360104000347 trimerization site [polypeptide binding]; other site 360104000348 active site 360104000349 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 360104000350 NifU-like domain; Region: NifU; cl00484 360104000351 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 360104000352 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 360104000353 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360104000354 catalytic residue [active] 360104000355 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 360104000356 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 360104000357 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 360104000358 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 360104000359 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 360104000360 Protein of unknown function (DUF770); Region: DUF770; pfam05591 360104000361 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 360104000362 Protein of unknown function (DUF877); Region: DUF877; pfam05943 360104000363 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 360104000364 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 360104000365 type VI secretion system effector, Hcp1 family; Region: VI_effect_Hcp1; TIGR03344 360104000366 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 360104000367 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 360104000368 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 360104000369 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 360104000370 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 360104000371 amphipathic channel; other site 360104000372 Asn-Pro-Ala signature motifs; other site 360104000373 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 360104000374 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 360104000375 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 360104000376 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360104000377 HlyD family secretion protein; Region: HlyD_3; pfam13437 360104000378 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 360104000379 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 360104000380 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 360104000381 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360104000382 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 360104000383 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 360104000384 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 360104000385 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 360104000386 Predicted oxidoreductase [General function prediction only]; Region: COG3573 360104000387 hypothetical protein; Provisional; Region: PRK04081 360104000388 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 360104000389 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 360104000390 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 360104000391 putative ligand binding site [chemical binding]; other site 360104000392 putative NAD binding site [chemical binding]; other site 360104000393 catalytic site [active] 360104000394 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 360104000395 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 360104000396 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 360104000397 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 360104000398 FeS/SAM binding site; other site 360104000399 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 360104000400 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360104000401 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 360104000402 Walker A/P-loop; other site 360104000403 ATP binding site [chemical binding]; other site 360104000404 Q-loop/lid; other site 360104000405 ABC transporter signature motif; other site 360104000406 Walker B; other site 360104000407 D-loop; other site 360104000408 H-loop/switch region; other site 360104000409 NADH dehydrogenase subunit A; Validated; Region: PRK08489 360104000410 NADH dehydrogenase subunit B; Validated; Region: PRK06411 360104000411 NADH dehydrogenase subunit G; Validated; Region: PRK08493 360104000412 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 360104000413 catalytic loop [active] 360104000414 iron binding site [ion binding]; other site 360104000415 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 360104000416 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 360104000417 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 360104000418 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 360104000419 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 360104000420 4Fe-4S binding domain; Region: Fer4; pfam00037 360104000421 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 360104000422 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 360104000423 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360104000424 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 360104000425 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360104000426 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00144 360104000427 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360104000428 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 360104000429 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 360104000430 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 360104000431 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 360104000432 haemagglutination activity domain; Region: Haemagg_act; pfam05860 360104000433 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 360104000434 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 360104000435 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 360104000436 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 360104000437 Protein of unknown function (DUF2614); Region: DUF2614; cl07936 360104000438 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 360104000439 putative active site [active] 360104000440 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 360104000441 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 360104000442 dimer interface [polypeptide binding]; other site 360104000443 PYR/PP interface [polypeptide binding]; other site 360104000444 TPP binding site [chemical binding]; other site 360104000445 substrate binding site [chemical binding]; other site 360104000446 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 360104000447 Domain of unknown function; Region: EKR; smart00890 360104000448 4Fe-4S binding domain; Region: Fer4_6; pfam12837 360104000449 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 360104000450 TPP-binding site [chemical binding]; other site 360104000451 dimer interface [polypeptide binding]; other site 360104000452 putative arabinose transporter; Provisional; Region: PRK03545 360104000453 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 360104000454 putative substrate translocation pore; other site 360104000455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4378 360104000456 flavodoxin FldA; Validated; Region: PRK09267 360104000457 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360104000458 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 360104000459 Walker A/P-loop; other site 360104000460 ATP binding site [chemical binding]; other site 360104000461 Q-loop/lid; other site 360104000462 ABC transporter signature motif; other site 360104000463 Walker B; other site 360104000464 D-loop; other site 360104000465 H-loop/switch region; other site 360104000466 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 360104000467 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 360104000468 dimer interface [polypeptide binding]; other site 360104000469 conserved gate region; other site 360104000470 putative PBP binding loops; other site 360104000471 ABC-ATPase subunit interface; other site 360104000472 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360104000473 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 360104000474 substrate binding pocket [chemical binding]; other site 360104000475 membrane-bound complex binding site; other site 360104000476 hinge residues; other site 360104000477 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360104000478 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 360104000479 substrate binding pocket [chemical binding]; other site 360104000480 membrane-bound complex binding site; other site 360104000481 hinge residues; other site 360104000482 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360104000483 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 360104000484 substrate binding pocket [chemical binding]; other site 360104000485 membrane-bound complex binding site; other site 360104000486 hinge residues; other site 360104000487 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 360104000488 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 360104000489 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 360104000490 putative acyl-acceptor binding pocket; other site 360104000491 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 360104000492 acyl-activating enzyme (AAE) consensus motif; other site 360104000493 AMP binding site [chemical binding]; other site 360104000494 active site 360104000495 CoA binding site [chemical binding]; other site 360104000496 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 360104000497 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 360104000498 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 360104000499 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 360104000500 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 360104000501 [2Fe-2S] cluster binding site [ion binding]; other site 360104000502 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 360104000503 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 360104000504 intrachain domain interface; other site 360104000505 interchain domain interface [polypeptide binding]; other site 360104000506 heme bH binding site [chemical binding]; other site 360104000507 heme bL binding site [chemical binding]; other site 360104000508 Qo binding site; other site 360104000509 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 360104000510 interchain domain interface [polypeptide binding]; other site 360104000511 intrachain domain interface; other site 360104000512 Qi binding site; other site 360104000513 Qo binding site; other site 360104000514 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 360104000515 Cytochrome c; Region: Cytochrom_C; pfam00034 360104000516 Cytochrome c; Region: Cytochrom_C; cl11414 360104000517 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 360104000518 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 360104000519 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 360104000520 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 360104000521 hydrogenase 4 subunit B; Validated; Region: PRK06521 360104000522 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360104000523 NADH dehydrogenase; Region: NADHdh; cl00469 360104000524 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 360104000525 hydrogenase 4 membrane subunit; Provisional; Region: hyfE; PRK11492 360104000526 hydrogenase 4 subunit F; Validated; Region: PRK06458 360104000527 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 360104000528 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 360104000529 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 360104000530 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 360104000531 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 360104000532 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 360104000533 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 360104000534 Formate hydrogenlyase maturation protein HycH; Region: HycH; cl06472 360104000535 Endopeptidases belonging to membrane-bound hydrogen evolving hydrogenase group. In hydrogenase 3 from E coli, the maturation of the large subunit (HycE) requires the cleavage of a C-terminal peptide by the endopeptidase HycI, before the final formation...; Region: H2MP_MemB-H2evol; cd06067 360104000536 nickel binding site [ion binding]; other site 360104000537 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 360104000538 Protein of unknown function (DUF507); Region: DUF507; pfam04368 360104000539 Family description; Region: DsbD_2; pfam13386 360104000540 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360104000541 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 360104000542 ATP binding site [chemical binding]; other site 360104000543 G-X-G motif; other site 360104000544 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360104000545 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 360104000546 active site 360104000547 phosphorylation site [posttranslational modification] 360104000548 intermolecular recognition site; other site 360104000549 dimerization interface [polypeptide binding]; other site 360104000550 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 360104000551 DNA binding site [nucleotide binding] 360104000552 cytochrome c oxidase, cbb3-type, CcoQ subunit, epsilon-Proteobacterial; Region: cbb3_Q_epsi; TIGR02736 360104000553 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 360104000554 Cytochrome c; Region: Cytochrom_C; cl11414 360104000555 Cytochrome c; Region: Cytochrom_C; pfam00034 360104000556 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 360104000557 FixH; Region: FixH; pfam05751 360104000558 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 360104000559 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 360104000560 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 360104000561 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 360104000562 putative recombination protein RecB; Provisional; Region: PRK13909 360104000563 Family description; Region: UvrD_C_2; pfam13538 360104000564 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 360104000565 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 360104000566 23S rRNA interface [nucleotide binding]; other site 360104000567 L3 interface [polypeptide binding]; other site 360104000568 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 360104000569 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 360104000570 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 360104000571 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360104000572 ligand binding site [chemical binding]; other site 360104000573 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 360104000574 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 360104000575 active site 360104000576 motif I; other site 360104000577 motif II; other site 360104000578 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 360104000579 flavoprotein, HI0933 family; Region: TIGR00275 360104000580 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 360104000581 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 360104000582 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360104000583 putative substrate translocation pore; other site 360104000584 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 360104000585 active site 360104000586 dimerization interface [polypeptide binding]; other site 360104000587 Tetratricopeptide repeat; Region: TPR_12; pfam13424 360104000588 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 360104000589 binding surface 360104000590 TPR motif; other site 360104000591 Tetratricopeptide repeat; Region: TPR_12; pfam13424 360104000592 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 360104000593 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104000594 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 360104000595 RmuC family; Region: RmuC; pfam02646 360104000596 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 360104000597 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 360104000598 selenocysteine synthase; Provisional; Region: PRK04311 360104000599 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 360104000600 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 360104000601 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 360104000602 G1 box; other site 360104000603 putative GEF interaction site [polypeptide binding]; other site 360104000604 GTP/Mg2+ binding site [chemical binding]; other site 360104000605 Switch I region; other site 360104000606 G2 box; other site 360104000607 G3 box; other site 360104000608 Switch II region; other site 360104000609 G4 box; other site 360104000610 G5 box; other site 360104000611 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 360104000612 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 360104000613 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 360104000614 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 360104000615 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 360104000616 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 360104000617 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 360104000618 molybdopterin cofactor binding site; other site 360104000619 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 360104000620 4Fe-4S binding domain; Region: Fer4; cl02805 360104000621 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 360104000622 Fe2+ transport protein; Region: Iron_transport; pfam10634 360104000623 Predicted membrane protein [Function unknown]; Region: COG4393 360104000624 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 360104000625 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 360104000626 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 360104000627 FtsX-like permease family; Region: FtsX; pfam02687 360104000628 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 360104000629 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 360104000630 FtsX-like permease family; Region: FtsX; pfam02687 360104000631 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360104000632 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360104000633 Walker A/P-loop; other site 360104000634 ATP binding site [chemical binding]; other site 360104000635 Q-loop/lid; other site 360104000636 ABC transporter signature motif; other site 360104000637 Walker B; other site 360104000638 D-loop; other site 360104000639 H-loop/switch region; other site 360104000640 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360104000641 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 360104000642 catalytic residues [active] 360104000643 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 360104000644 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 360104000645 binding surface 360104000646 TPR motif; other site 360104000647 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 360104000648 seryl-tRNA synthetase; Provisional; Region: PRK05431 360104000649 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 360104000650 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 360104000651 dimer interface [polypeptide binding]; other site 360104000652 active site 360104000653 motif 1; other site 360104000654 motif 2; other site 360104000655 motif 3; other site 360104000656 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 360104000657 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 360104000658 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 360104000659 active site 360104000660 HIGH motif; other site 360104000661 dimer interface [polypeptide binding]; other site 360104000662 KMSKS motif; other site 360104000663 shikimate kinase; Reviewed; Region: aroK; PRK00131 360104000664 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 360104000665 ADP binding site [chemical binding]; other site 360104000666 magnesium binding site [ion binding]; other site 360104000667 putative shikimate binding site; other site 360104000668 GTP-binding protein Der; Reviewed; Region: PRK00093 360104000669 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 360104000670 G1 box; other site 360104000671 GTP/Mg2+ binding site [chemical binding]; other site 360104000672 Switch I region; other site 360104000673 G2 box; other site 360104000674 Switch II region; other site 360104000675 G3 box; other site 360104000676 G4 box; other site 360104000677 G5 box; other site 360104000678 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 360104000679 G1 box; other site 360104000680 GTP/Mg2+ binding site [chemical binding]; other site 360104000681 Switch I region; other site 360104000682 G2 box; other site 360104000683 G3 box; other site 360104000684 Switch II region; other site 360104000685 G4 box; other site 360104000686 G5 box; other site 360104000687 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 360104000688 EamA-like transporter family; Region: EamA; pfam00892 360104000689 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 360104000690 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 360104000691 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 360104000692 homopentamer interface [polypeptide binding]; other site 360104000693 active site 360104000694 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 360104000695 putative RNA binding site [nucleotide binding]; other site 360104000696 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 360104000697 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 360104000698 TPR motif; other site 360104000699 binding surface 360104000700 TPR repeat; Region: TPR_11; pfam13414 360104000701 DNA primase, catalytic core; Region: dnaG; TIGR01391 360104000702 CHC2 zinc finger; Region: zf-CHC2; pfam01807 360104000703 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 360104000704 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 360104000705 active site 360104000706 metal binding site [ion binding]; metal-binding site 360104000707 interdomain interaction site; other site 360104000708 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 360104000709 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 360104000710 putative metal binding site [ion binding]; other site 360104000711 dimer interface [polypeptide binding]; other site 360104000712 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 360104000713 active site pocket [active] 360104000714 oxyanion hole [active] 360104000715 catalytic triad [active] 360104000716 active site nucleophile [active] 360104000717 peptidase T; Region: peptidase-T; TIGR01882 360104000718 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 360104000719 metal binding site [ion binding]; metal-binding site 360104000720 dimer interface [polypeptide binding]; other site 360104000721 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 360104000722 Ligand Binding Site [chemical binding]; other site 360104000723 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 360104000724 Protein of unknown function (DUF996); Region: DUF996; pfam06195 360104000725 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 360104000726 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 360104000727 active site 360104000728 DNA binding site [nucleotide binding] 360104000729 Int/Topo IB signature motif; other site 360104000730 AAA domain; Region: AAA_14; pfam13173 360104000731 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 360104000732 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 360104000733 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 360104000734 salt bridge; other site 360104000735 non-specific DNA binding site [nucleotide binding]; other site 360104000736 sequence-specific DNA binding site [nucleotide binding]; other site 360104000737 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 360104000738 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 360104000739 Walker A motif; other site 360104000740 ATP binding site [chemical binding]; other site 360104000741 Walker B motif; other site 360104000742 arginine finger; other site 360104000743 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 360104000744 Walker A motif; other site 360104000745 ATP binding site [chemical binding]; other site 360104000746 Walker B motif; other site 360104000747 arginine finger; other site 360104000748 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 360104000749 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 360104000750 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 360104000751 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 360104000752 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 360104000753 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 360104000754 cofactor binding site; other site 360104000755 DNA binding site [nucleotide binding] 360104000756 substrate interaction site [chemical binding]; other site 360104000757 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 360104000758 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 360104000759 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 360104000760 cofactor binding site; other site 360104000761 DNA binding site [nucleotide binding] 360104000762 substrate interaction site [chemical binding]; other site 360104000763 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 360104000764 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 360104000765 LlaJI restriction endonuclease; Region: RE_LlaJI; pfam09563 360104000766 Uncharacterized conserved protein [Function unknown]; Region: COG1479 360104000767 Protein of unknown function DUF262; Region: DUF262; pfam03235 360104000768 Protein of unknown function DUF262; Region: DUF262; pfam03235 360104000769 NAD-dependent deacetylase; Provisional; Region: PRK00481 360104000770 SIR2 superfamily 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; cd00296 360104000771 Predicted transcriptional regulator [Transcription]; Region: COG2378 360104000772 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 360104000773 WYL domain; Region: WYL; pfam13280 360104000774 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 360104000775 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 360104000776 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 360104000777 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 360104000778 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 360104000779 putative selenium metabolism protein, YedE family; Region: seleno_YedE; TIGR04112 360104000780 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 360104000781 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 360104000782 dimer interface [polypeptide binding]; other site 360104000783 putative functional site; other site 360104000784 putative MPT binding site; other site 360104000785 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 360104000786 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 360104000787 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 360104000788 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 360104000789 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 360104000790 domain interfaces; other site 360104000791 active site 360104000792 chaperone protein DnaJ; Provisional; Region: PRK10767 360104000793 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 360104000794 HSP70 interaction site [polypeptide binding]; other site 360104000795 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 360104000796 substrate binding site [polypeptide binding]; other site 360104000797 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 360104000798 Zn binding sites [ion binding]; other site 360104000799 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 360104000800 dimer interface [polypeptide binding]; other site 360104000801 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360104000802 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 360104000803 active site 360104000804 phosphorylation site [posttranslational modification] 360104000805 intermolecular recognition site; other site 360104000806 dimerization interface [polypeptide binding]; other site 360104000807 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 360104000808 DNA binding site [nucleotide binding] 360104000809 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360104000810 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 360104000811 ATP binding site [chemical binding]; other site 360104000812 Mg2+ binding site [ion binding]; other site 360104000813 G-X-G motif; other site 360104000814 recombination protein RecR; Reviewed; Region: recR; PRK00076 360104000815 RecR protein; Region: RecR; pfam02132 360104000816 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 360104000817 active site 360104000818 metal binding site [ion binding]; metal-binding site 360104000819 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK14607 360104000820 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 360104000821 glutamine binding [chemical binding]; other site 360104000822 catalytic triad [active] 360104000823 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 360104000824 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 360104000825 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 360104000826 active site 360104000827 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 360104000828 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 360104000829 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104000830 catalytic residue [active] 360104000831 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 360104000832 substrate binding site [chemical binding]; other site 360104000833 active site 360104000834 catalytic residues [active] 360104000835 heterodimer interface [polypeptide binding]; other site 360104000836 Chemotaxis phosphatase CheX; Region: CheX; cl15816 360104000837 flagellar motor switch protein; Validated; Region: PRK08433 360104000838 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 360104000839 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 360104000840 nucleotide binding site [chemical binding]; other site 360104000841 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360104000842 HAMP domain; Region: HAMP; pfam00672 360104000843 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 360104000844 dimer interface [polypeptide binding]; other site 360104000845 phosphorylation site [posttranslational modification] 360104000846 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 360104000847 Mg2+ binding site [ion binding]; other site 360104000848 G-X-G motif; other site 360104000849 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360104000850 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 360104000851 active site 360104000852 phosphorylation site [posttranslational modification] 360104000853 intermolecular recognition site; other site 360104000854 dimerization interface [polypeptide binding]; other site 360104000855 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 360104000856 DNA binding site [nucleotide binding] 360104000857 Dihydroneopterin aldolase; Region: FolB; smart00905 360104000858 active site 360104000859 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 360104000860 Domain of unknown function DUF87; Region: DUF87; pfam01935 360104000861 PilZ domain; Region: PilZ; pfam07238 360104000862 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 360104000863 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 360104000864 dimer interface [polypeptide binding]; other site 360104000865 decamer (pentamer of dimers) interface [polypeptide binding]; other site 360104000866 catalytic triad [active] 360104000867 peroxidatic and resolving cysteines [active] 360104000868 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 360104000869 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 360104000870 dimer interface [polypeptide binding]; other site 360104000871 active site 360104000872 CoA binding pocket [chemical binding]; other site 360104000873 putative phosphate acyltransferase; Provisional; Region: PRK05331 360104000874 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 360104000875 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 360104000876 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 360104000877 active site 360104000878 multimer interface [polypeptide binding]; other site 360104000879 Ferredoxin [Energy production and conversion]; Region: COG1146 360104000880 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 360104000881 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 360104000882 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 360104000883 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 360104000884 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104000885 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 360104000886 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104000887 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 360104000888 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 360104000889 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 360104000890 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 360104000891 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 360104000892 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 360104000893 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 360104000894 Domain of unknown function (DUF2088); Region: DUF2088; pfam09861 360104000895 Protein of unknown function DUF111; Region: DUF111; pfam01969 360104000896 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 360104000897 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 360104000898 Ligand Binding Site [chemical binding]; other site 360104000899 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 360104000900 AIR carboxylase; Region: AIRC; smart01001 360104000901 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 360104000902 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 360104000903 tartrate dehydratase subunit alpha; Validated; Region: PRK08230 360104000904 L(+)-tartrate dehydratase subunit beta; Validated; Region: PRK08228 360104000905 Transcriptional regulators [Transcription]; Region: GntR; COG1802 360104000906 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360104000907 DNA-binding site [nucleotide binding]; DNA binding site 360104000908 FCD domain; Region: FCD; pfam07729 360104000909 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 360104000910 active site 360104000911 homotetramer interface [polypeptide binding]; other site 360104000912 homodimer interface [polypeptide binding]; other site 360104000913 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 360104000914 transmembrane helices; other site 360104000915 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 360104000916 EF-hand domain pair; Region: EF_hand_5; pfam13499 360104000917 Ca2+ binding site [ion binding]; other site 360104000918 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 360104000919 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 360104000920 putative active site [active] 360104000921 substrate binding site [chemical binding]; other site 360104000922 putative cosubstrate binding site; other site 360104000923 catalytic site [active] 360104000924 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 360104000925 substrate binding site [chemical binding]; other site 360104000926 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 360104000927 dimer interface [polypeptide binding]; other site 360104000928 substrate binding site [chemical binding]; other site 360104000929 ATP binding site [chemical binding]; other site 360104000930 biotin--protein ligase; Provisional; Region: PRK08477 360104000931 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 360104000932 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 360104000933 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 360104000934 P-loop; other site 360104000935 Magnesium ion binding site [ion binding]; other site 360104000936 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 360104000937 Magnesium ion binding site [ion binding]; other site 360104000938 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 360104000939 ParB-like nuclease domain; Region: ParB; smart00470 360104000940 F0F1 ATP synthase subunit B'; Validated; Region: PRK08476 360104000941 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 360104000942 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 360104000943 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 360104000944 F0F1 ATP synthase subunit delta; Validated; Region: PRK08474 360104000945 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 360104000946 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 360104000947 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 360104000948 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 360104000949 beta subunit interaction interface [polypeptide binding]; other site 360104000950 Walker A motif; other site 360104000951 ATP binding site [chemical binding]; other site 360104000952 Walker B motif; other site 360104000953 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 360104000954 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 360104000955 core domain interface [polypeptide binding]; other site 360104000956 delta subunit interface [polypeptide binding]; other site 360104000957 epsilon subunit interface [polypeptide binding]; other site 360104000958 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 360104000959 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 360104000960 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 360104000961 alpha subunit interaction interface [polypeptide binding]; other site 360104000962 Walker A motif; other site 360104000963 ATP binding site [chemical binding]; other site 360104000964 Walker B motif; other site 360104000965 inhibitor binding site; inhibition site 360104000966 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 360104000967 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 360104000968 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 360104000969 gamma subunit interface [polypeptide binding]; other site 360104000970 epsilon subunit interface [polypeptide binding]; other site 360104000971 LBP interface [polypeptide binding]; other site 360104000972 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 360104000973 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 360104000974 TolR protein; Region: tolR; TIGR02801 360104000975 TonB C terminal; Region: TonB_2; pfam13103 360104000976 translocation protein TolB; Provisional; Region: tolB; PRK04043 360104000977 TolB amino-terminal domain; Region: TolB_N; pfam04052 360104000978 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 360104000979 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 360104000980 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360104000981 ligand binding site [chemical binding]; other site 360104000982 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 360104000983 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 360104000984 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 360104000985 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 360104000986 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 360104000987 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 360104000988 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 360104000989 Ligand Binding Site [chemical binding]; other site 360104000990 putative recombination protein RecO; Provisional; Region: PRK13908 360104000991 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 360104000992 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 360104000993 FMN binding site [chemical binding]; other site 360104000994 active site 360104000995 catalytic residues [active] 360104000996 substrate binding site [chemical binding]; other site 360104000997 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 360104000998 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 360104000999 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 360104001000 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 360104001001 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 360104001002 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360104001003 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360104001004 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 360104001005 Surface antigen; Region: Bac_surface_Ag; pfam01103 360104001006 prephenate dehydrogenase; Validated; Region: PRK08507 360104001007 Prephenate dehydrogenase; Region: PDH; pfam02153 360104001008 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 360104001009 Peptidase family M23; Region: Peptidase_M23; pfam01551 360104001010 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 360104001011 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 360104001012 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 360104001013 homoserine kinase; Provisional; Region: PRK01212 360104001014 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 360104001015 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 360104001016 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; cl00189 360104001017 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 360104001018 translation initiation factor IF-2; Region: IF-2; TIGR00487 360104001019 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 360104001020 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 360104001021 G1 box; other site 360104001022 putative GEF interaction site [polypeptide binding]; other site 360104001023 GTP/Mg2+ binding site [chemical binding]; other site 360104001024 Switch I region; other site 360104001025 G2 box; other site 360104001026 G3 box; other site 360104001027 Switch II region; other site 360104001028 G4 box; other site 360104001029 G5 box; other site 360104001030 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 360104001031 Translation-initiation factor 2; Region: IF-2; pfam11987 360104001032 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 360104001033 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 360104001034 ribosome maturation protein RimP; Reviewed; Region: PRK00092 360104001035 Sm and related proteins; Region: Sm_like; cl00259 360104001036 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 360104001037 putative oligomer interface [polypeptide binding]; other site 360104001038 putative RNA binding site [nucleotide binding]; other site 360104001039 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 360104001040 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 360104001041 catalytic motif [active] 360104001042 Zn binding site [ion binding]; other site 360104001043 RibD C-terminal domain; Region: RibD_C; cl17279 360104001044 F0F1 ATP synthase subunit C; Validated; Region: PRK08482 360104001045 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 360104001046 Na2 binding site [ion binding]; other site 360104001047 putative substrate binding site 1 [chemical binding]; other site 360104001048 Na binding site 1 [ion binding]; other site 360104001049 putative substrate binding site 2 [chemical binding]; other site 360104001050 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 360104001051 Na2 binding site [ion binding]; other site 360104001052 putative substrate binding site 1 [chemical binding]; other site 360104001053 Na binding site 1 [ion binding]; other site 360104001054 putative substrate binding site 2 [chemical binding]; other site 360104001055 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 360104001056 Na2 binding site [ion binding]; other site 360104001057 putative substrate binding site 1 [chemical binding]; other site 360104001058 Na binding site 1 [ion binding]; other site 360104001059 putative substrate binding site 2 [chemical binding]; other site 360104001060 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 360104001061 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 360104001062 DctM-like transporters; Region: DctM; pfam06808 360104001063 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 360104001064 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 360104001065 active site 360104001066 catalytic residues [active] 360104001067 metal binding site [ion binding]; metal-binding site 360104001068 homodimer binding site [polypeptide binding]; other site 360104001069 Biotin carboxyl carrier protein [Lipid metabolism]; Region: AccB; COG0511 360104001070 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 360104001071 carboxyltransferase (CT) interaction site; other site 360104001072 biotinylation site [posttranslational modification]; other site 360104001073 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 360104001074 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 360104001075 active site 360104001076 substrate-binding site [chemical binding]; other site 360104001077 metal-binding site [ion binding] 360104001078 ATP binding site [chemical binding]; other site 360104001079 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 360104001080 aspartate racemase; Region: asp_race; TIGR00035 360104001081 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 360104001082 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 360104001083 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 360104001084 active site 360104001085 hypothetical protein; Provisional; Region: PRK12378 360104001086 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 360104001087 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360104001088 Coenzyme A binding pocket [chemical binding]; other site 360104001089 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 360104001090 metal-binding site [ion binding] 360104001091 conserved hypothetical protein; Region: TIGR02231 360104001092 argininosuccinate lyase; Provisional; Region: PRK00855 360104001093 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 360104001094 active sites [active] 360104001095 tetramer interface [polypeptide binding]; other site 360104001096 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 360104001097 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360104001098 dimer interface [polypeptide binding]; other site 360104001099 putative CheW interface [polypeptide binding]; other site 360104001100 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 360104001101 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 360104001102 H+ Antiporter protein; Region: 2A0121; TIGR00900 360104001103 putative substrate translocation pore; other site 360104001104 NlpE N-terminal domain; Region: NlpE; pfam04170 360104001105 NlpE N-terminal domain; Region: NlpE; pfam04170 360104001106 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 360104001107 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 360104001108 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 360104001109 hypothetical protein; Provisional; Region: PRK08445 360104001110 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 360104001111 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 360104001112 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 360104001113 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 360104001114 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 360104001115 generic binding surface II; other site 360104001116 ssDNA binding site; other site 360104001117 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 360104001118 ATP binding site [chemical binding]; other site 360104001119 putative Mg++ binding site [ion binding]; other site 360104001120 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 360104001121 nucleotide binding region [chemical binding]; other site 360104001122 ATP-binding site [chemical binding]; other site 360104001123 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 360104001124 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 360104001125 Walker A/P-loop; other site 360104001126 ATP binding site [chemical binding]; other site 360104001127 Q-loop/lid; other site 360104001128 ABC transporter signature motif; other site 360104001129 Walker B; other site 360104001130 D-loop; other site 360104001131 H-loop/switch region; other site 360104001132 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 360104001133 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 360104001134 ABC-ATPase subunit interface; other site 360104001135 dimer interface [polypeptide binding]; other site 360104001136 putative PBP binding regions; other site 360104001137 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 360104001138 putative ligand binding residues [chemical binding]; other site 360104001139 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 360104001140 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 360104001141 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 360104001142 metal-binding heat shock protein; Provisional; Region: PRK00016 360104001143 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 360104001144 Ligand Binding Site [chemical binding]; other site 360104001145 hydroxylamine reductase; Provisional; Region: PRK12310 360104001146 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 360104001147 ACS interaction site; other site 360104001148 CODH interaction site; other site 360104001149 metal cluster binding site [ion binding]; other site 360104001150 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 360104001151 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 360104001152 active site 360104001153 HIGH motif; other site 360104001154 KMSKS motif; other site 360104001155 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 360104001156 tRNA binding surface [nucleotide binding]; other site 360104001157 anticodon binding site; other site 360104001158 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 360104001159 putative tRNA-binding site [nucleotide binding]; other site 360104001160 dimer interface [polypeptide binding]; other site 360104001161 fructose-1,6-bisphosphatase; Provisional; Region: PRK09293 360104001162 active site 360104001163 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 360104001164 Walker A motif; other site 360104001165 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 360104001166 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 360104001167 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360104001168 catalytic residue [active] 360104001169 YGGT family; Region: YGGT; pfam02325 360104001170 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 360104001171 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360104001172 active site 360104001173 HIGH motif; other site 360104001174 nucleotide binding site [chemical binding]; other site 360104001175 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360104001176 active site 360104001177 KMSKS motif; other site 360104001178 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 360104001179 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 360104001180 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 360104001181 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 360104001182 ligand binding site [chemical binding]; other site 360104001183 flexible hinge region; other site 360104001184 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 360104001185 putative switch regulator; other site 360104001186 non-specific DNA interactions [nucleotide binding]; other site 360104001187 DNA binding site [nucleotide binding] 360104001188 sequence specific DNA binding site [nucleotide binding]; other site 360104001189 putative cAMP binding site [chemical binding]; other site 360104001190 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 360104001191 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 360104001192 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 360104001193 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 360104001194 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 360104001195 putative active site [active] 360104001196 putative metal binding site [ion binding]; other site 360104001197 phosphatidylserine decarboxylase; Provisional; Region: PRK03934 360104001198 GMP synthase; Reviewed; Region: guaA; PRK00074 360104001199 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 360104001200 AMP/PPi binding site [chemical binding]; other site 360104001201 candidate oxyanion hole; other site 360104001202 catalytic triad [active] 360104001203 potential glutamine specificity residues [chemical binding]; other site 360104001204 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 360104001205 ATP Binding subdomain [chemical binding]; other site 360104001206 Ligand Binding sites [chemical binding]; other site 360104001207 Dimerization subdomain; other site 360104001208 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 360104001209 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 360104001210 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 360104001211 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 360104001212 GIY-YIG motif/motif A; other site 360104001213 active site 360104001214 catalytic site [active] 360104001215 putative DNA binding site [nucleotide binding]; other site 360104001216 metal binding site [ion binding]; metal-binding site 360104001217 UvrB/uvrC motif; Region: UVR; pfam02151 360104001218 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 360104001219 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 360104001220 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 360104001221 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 360104001222 dimer interface [polypeptide binding]; other site 360104001223 motif 1; other site 360104001224 active site 360104001225 motif 2; other site 360104001226 motif 3; other site 360104001227 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 360104001228 LytB protein; Region: LYTB; pfam02401 360104001229 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 360104001230 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 360104001231 RNA binding site [nucleotide binding]; other site 360104001232 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 360104001233 RNA binding site [nucleotide binding]; other site 360104001234 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 360104001235 RNA binding site [nucleotide binding]; other site 360104001236 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 360104001237 RNA binding site [nucleotide binding]; other site 360104001238 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 360104001239 RNA binding site [nucleotide binding]; other site 360104001240 Ribosomal protein S1-like RNA-binding domain; Region: S1; smart00316 360104001241 RNA binding site [nucleotide binding]; other site 360104001242 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 360104001243 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 360104001244 ligand binding site [chemical binding]; other site 360104001245 NAD binding site [chemical binding]; other site 360104001246 dimerization interface [polypeptide binding]; other site 360104001247 catalytic site [active] 360104001248 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 360104001249 putative L-serine binding site [chemical binding]; other site 360104001250 elongation factor P; Validated; Region: PRK00529 360104001251 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 360104001252 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 360104001253 RNA binding site [nucleotide binding]; other site 360104001254 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 360104001255 RNA binding site [nucleotide binding]; other site 360104001256 Domain of unknown function (DUF4304); Region: DUF4304; pfam14137 360104001257 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 360104001258 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 360104001259 ATP binding site [chemical binding]; other site 360104001260 substrate interface [chemical binding]; other site 360104001261 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 360104001262 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 360104001263 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 360104001264 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 360104001265 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 360104001266 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 360104001267 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 360104001268 putative active site [active] 360104001269 putative metal binding site [ion binding]; other site 360104001270 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 360104001271 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 360104001272 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 360104001273 active site 360104001274 phosphorylation site [posttranslational modification] 360104001275 intermolecular recognition site; other site 360104001276 dimerization interface [polypeptide binding]; other site 360104001277 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 360104001278 putative binding surface; other site 360104001279 active site 360104001280 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 360104001281 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 360104001282 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 360104001283 ATP binding site [chemical binding]; other site 360104001284 Mg2+ binding site [ion binding]; other site 360104001285 G-X-G motif; other site 360104001286 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 360104001287 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 360104001288 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 360104001289 active site 360104001290 phosphorylation site [posttranslational modification] 360104001291 intermolecular recognition site; other site 360104001292 dimerization interface [polypeptide binding]; other site 360104001293 phosphoserine phosphatase SerB; Region: serB; TIGR00338 360104001294 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 360104001295 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 360104001296 motif II; other site 360104001297 Class I aldolases; Region: Aldolase_Class_I; cl17187 360104001298 transaldolase; Provisional; Region: PRK03903 360104001299 catalytic residue [active] 360104001300 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 360104001301 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360104001302 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 360104001303 Walker A/P-loop; other site 360104001304 Walker A motif; other site 360104001305 ATP binding site [chemical binding]; other site 360104001306 ATP binding site [chemical binding]; other site 360104001307 Walker B motif; other site 360104001308 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 360104001309 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 360104001310 5S rRNA interface [nucleotide binding]; other site 360104001311 CTC domain interface [polypeptide binding]; other site 360104001312 L16 interface [polypeptide binding]; other site 360104001313 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 360104001314 putative active site [active] 360104001315 Predicted permeases [General function prediction only]; Region: COG0795 360104001316 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 360104001317 diaminopimelate decarboxylase; Region: lysA; TIGR01048 360104001318 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 360104001319 active site 360104001320 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360104001321 substrate binding site [chemical binding]; other site 360104001322 catalytic residues [active] 360104001323 dimer interface [polypeptide binding]; other site 360104001324 Chorismate mutase type II; Region: CM_2; smart00830 360104001325 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 360104001326 Prephenate dehydratase; Region: PDT; pfam00800 360104001327 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 360104001328 putative L-Phe binding site [chemical binding]; other site 360104001329 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 360104001330 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 360104001331 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104001332 homodimer interface [polypeptide binding]; other site 360104001333 catalytic residue [active] 360104001334 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 360104001335 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 360104001336 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 360104001337 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 360104001338 FliG C-terminal domain; Region: FliG_C; pfam01706 360104001339 flagellar assembly protein H; Validated; Region: fliH; PRK06669 360104001340 Flagellar assembly protein FliH; Region: FliH; pfam02108 360104001341 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 360104001342 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 360104001343 TPP-binding site; other site 360104001344 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 360104001345 PYR/PP interface [polypeptide binding]; other site 360104001346 dimer interface [polypeptide binding]; other site 360104001347 TPP binding site [chemical binding]; other site 360104001348 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 360104001349 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 360104001350 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 360104001351 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360104001352 catalytic residue [active] 360104001353 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 360104001354 S-adenosylmethionine binding site [chemical binding]; other site 360104001355 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 360104001356 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 360104001357 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 360104001358 anthranilate synthase component I, archaeal clade; Region: TrpE-arch; TIGR01820 360104001359 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 360104001360 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 360104001361 GTP-binding protein YchF; Reviewed; Region: PRK09601 360104001362 YchF GTPase; Region: YchF; cd01900 360104001363 G1 box; other site 360104001364 GTP/Mg2+ binding site [chemical binding]; other site 360104001365 Switch I region; other site 360104001366 G2 box; other site 360104001367 Switch II region; other site 360104001368 G3 box; other site 360104001369 G4 box; other site 360104001370 G5 box; other site 360104001371 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 360104001372 multifunctional aminopeptidase A; Provisional; Region: PRK00913 360104001373 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 360104001374 interface (dimer of trimers) [polypeptide binding]; other site 360104001375 Substrate-binding/catalytic site; other site 360104001376 Zn-binding sites [ion binding]; other site 360104001377 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 360104001378 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 360104001379 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360104001380 active site 360104001381 Protein of unknown function (DUF972); Region: DUF972; pfam06156 360104001382 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 360104001383 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 360104001384 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 360104001385 Peptidase family M50; Region: Peptidase_M50; pfam02163 360104001386 active site 360104001387 putative substrate binding region [chemical binding]; other site 360104001388 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 360104001389 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 360104001390 Catalytic site [active] 360104001391 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 360104001392 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 360104001393 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 360104001394 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 360104001395 homodimer interface [polypeptide binding]; other site 360104001396 NADP binding site [chemical binding]; other site 360104001397 substrate binding site [chemical binding]; other site 360104001398 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 360104001399 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 360104001400 inhibitor-cofactor binding pocket; inhibition site 360104001401 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104001402 catalytic residue [active] 360104001403 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 360104001404 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 360104001405 putative substrate translocation pore; other site 360104001406 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 360104001407 flhB C-terminus-related protein; Region: flhB_rel; TIGR00789 360104001408 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 360104001409 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 360104001410 dimerization interface [polypeptide binding]; other site 360104001411 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 360104001412 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360104001413 dimer interface [polypeptide binding]; other site 360104001414 putative CheW interface [polypeptide binding]; other site 360104001415 CheB methylesterase; Region: CheB_methylest; pfam01339 360104001416 DNA gyrase subunit A; Validated; Region: PRK05560 360104001417 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 360104001418 CAP-like domain; other site 360104001419 active site 360104001420 primary dimer interface [polypeptide binding]; other site 360104001421 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360104001422 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360104001423 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360104001424 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360104001425 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360104001426 Response regulator receiver domain; Region: Response_reg; pfam00072 360104001427 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 360104001428 active site 360104001429 phosphorylation site [posttranslational modification] 360104001430 intermolecular recognition site; other site 360104001431 dimerization interface [polypeptide binding]; other site 360104001432 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 360104001433 Walker A motif; other site 360104001434 ATP binding site [chemical binding]; other site 360104001435 Walker B motif; other site 360104001436 arginine finger; other site 360104001437 Predicted transcriptional regulator [Transcription]; Region: COG1959 360104001438 Transcriptional regulator; Region: Rrf2; pfam02082 360104001439 NADH(P)-binding; Region: NAD_binding_10; pfam13460 360104001440 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104001441 active site 360104001442 Cupin domain; Region: Cupin_2; pfam07883 360104001443 ABC transporter transmembrane region; Region: ABC_membrane_3; pfam13748 360104001444 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 360104001445 GTP-binding protein LepA; Provisional; Region: PRK05433 360104001446 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 360104001447 G1 box; other site 360104001448 putative GEF interaction site [polypeptide binding]; other site 360104001449 GTP/Mg2+ binding site [chemical binding]; other site 360104001450 Switch I region; other site 360104001451 G2 box; other site 360104001452 G3 box; other site 360104001453 Switch II region; other site 360104001454 G4 box; other site 360104001455 G5 box; other site 360104001456 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 360104001457 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 360104001458 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 360104001459 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 360104001460 active site 1 [active] 360104001461 dimer interface [polypeptide binding]; other site 360104001462 hexamer interface [polypeptide binding]; other site 360104001463 active site 2 [active] 360104001464 type IV conjugative transfer system lipoprotein TraV; Region: TraV; TIGR02747 360104001465 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 360104001466 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 360104001467 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360104001468 active site 360104001469 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 360104001470 structural tetrad; other site 360104001471 ferredoxin-type protein; Provisional; Region: PRK10194 360104001472 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 360104001473 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 360104001474 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360104001475 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360104001476 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 360104001477 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 360104001478 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 360104001479 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 360104001480 molybdopterin cofactor binding site; other site 360104001481 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 360104001482 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 360104001483 molybdopterin cofactor binding site; other site 360104001484 Cache domain; Region: Cache_1; pfam02743 360104001485 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 360104001486 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360104001487 dimer interface [polypeptide binding]; other site 360104001488 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 360104001489 putative CheW interface [polypeptide binding]; other site 360104001490 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 360104001491 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 360104001492 Cu(I) binding site [ion binding]; other site 360104001493 Protein of unknown function (DUF461); Region: DUF461; pfam04314 360104001494 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 360104001495 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 360104001496 alanine racemase; Reviewed; Region: alr; PRK00053 360104001497 active site 360104001498 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360104001499 dimer interface [polypeptide binding]; other site 360104001500 substrate binding site [chemical binding]; other site 360104001501 catalytic residues [active] 360104001502 M48 family peptidase; Provisional; Region: PRK03001 360104001503 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 360104001504 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; cl17726 360104001505 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 360104001506 dimerization interface [polypeptide binding]; other site 360104001507 active site 360104001508 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 360104001509 dimer interface [polypeptide binding]; other site 360104001510 active site 360104001511 Schiff base residues; other site 360104001512 ornithine carbamoyltransferase; Provisional; Region: PRK00779 360104001513 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 360104001514 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 360104001515 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 360104001516 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 360104001517 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 360104001518 FeS/SAM binding site; other site 360104001519 HemN C-terminal domain; Region: HemN_C; pfam06969 360104001520 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 360104001521 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 360104001522 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360104001523 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104001524 metal binding site [ion binding]; metal-binding site 360104001525 active site 360104001526 I-site; other site 360104001527 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 360104001528 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 360104001529 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 360104001530 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360104001531 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 360104001532 Walker A/P-loop; other site 360104001533 ATP binding site [chemical binding]; other site 360104001534 Q-loop/lid; other site 360104001535 ABC transporter signature motif; other site 360104001536 Walker B; other site 360104001537 D-loop; other site 360104001538 H-loop/switch region; other site 360104001539 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 360104001540 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360104001541 HlyD family secretion protein; Region: HlyD_3; pfam13437 360104001542 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 360104001543 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 360104001544 dimerization interface [polypeptide binding]; other site 360104001545 DNA binding residues [nucleotide binding] 360104001546 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 360104001547 elongation factor Tu; Reviewed; Region: PRK00049 360104001548 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 360104001549 G1 box; other site 360104001550 GEF interaction site [polypeptide binding]; other site 360104001551 GTP/Mg2+ binding site [chemical binding]; other site 360104001552 Switch I region; other site 360104001553 G2 box; other site 360104001554 G3 box; other site 360104001555 Switch II region; other site 360104001556 G4 box; other site 360104001557 G5 box; other site 360104001558 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 360104001559 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 360104001560 Antibiotic Binding Site [chemical binding]; other site 360104001561 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 360104001562 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 360104001563 putative homodimer interface [polypeptide binding]; other site 360104001564 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 360104001565 heterodimer interface [polypeptide binding]; other site 360104001566 homodimer interface [polypeptide binding]; other site 360104001567 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 360104001568 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 360104001569 23S rRNA interface [nucleotide binding]; other site 360104001570 L7/L12 interface [polypeptide binding]; other site 360104001571 putative thiostrepton binding site; other site 360104001572 L25 interface [polypeptide binding]; other site 360104001573 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 360104001574 mRNA/rRNA interface [nucleotide binding]; other site 360104001575 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 360104001576 23S rRNA interface [nucleotide binding]; other site 360104001577 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 360104001578 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 360104001579 L11 interface [polypeptide binding]; other site 360104001580 putative EF-Tu interaction site [polypeptide binding]; other site 360104001581 putative EF-G interaction site [polypeptide binding]; other site 360104001582 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 360104001583 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 360104001584 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 360104001585 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 360104001586 RPB11 interaction site [polypeptide binding]; other site 360104001587 RPB12 interaction site [polypeptide binding]; other site 360104001588 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 360104001589 RPB3 interaction site [polypeptide binding]; other site 360104001590 RPB1 interaction site [polypeptide binding]; other site 360104001591 RPB11 interaction site [polypeptide binding]; other site 360104001592 RPB10 interaction site [polypeptide binding]; other site 360104001593 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 360104001594 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 360104001595 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 360104001596 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 360104001597 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 360104001598 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 360104001599 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 360104001600 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 360104001601 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 360104001602 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 360104001603 DNA binding site [nucleotide binding] 360104001604 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 360104001605 DoxX; Region: DoxX; pfam07681 360104001606 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 360104001607 isoaspartyl dipeptidase; Provisional; Region: PRK10657 360104001608 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 360104001609 active site 360104001610 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 360104001611 S17 interaction site [polypeptide binding]; other site 360104001612 S8 interaction site; other site 360104001613 16S rRNA interaction site [nucleotide binding]; other site 360104001614 streptomycin interaction site [chemical binding]; other site 360104001615 23S rRNA interaction site [nucleotide binding]; other site 360104001616 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 360104001617 30S ribosomal protein S7; Validated; Region: PRK05302 360104001618 Campylobacter major outer membrane protein; Region: Campylo_MOMP; pfam05538 360104001619 Cytochrome c; Region: Cytochrom_C; cl11414 360104001620 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 360104001621 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 360104001622 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 360104001623 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 360104001624 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 360104001625 tetramer interfaces [polypeptide binding]; other site 360104001626 binuclear metal-binding site [ion binding]; other site 360104001627 ATP sulfurylase (sulfate adenylyltransferase) [Inorganic ion transport and metabolism]; Region: MET3; COG2046 360104001628 ATP-sulfurylase; Region: ATP-sulfurylase; pfam01747 360104001629 Response regulator receiver domain; Region: Response_reg; pfam00072 360104001630 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 360104001631 active site 360104001632 phosphorylation site [posttranslational modification] 360104001633 intermolecular recognition site; other site 360104001634 dimerization interface [polypeptide binding]; other site 360104001635 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 360104001636 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 360104001637 substrate binding site; other site 360104001638 dimer interface; other site 360104001639 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 360104001640 homotrimer interaction site [polypeptide binding]; other site 360104001641 zinc binding site [ion binding]; other site 360104001642 CDP-binding sites; other site 360104001643 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 360104001644 ThiC family; Region: ThiC; pfam01964 360104001645 antiporter inner membrane protein; Provisional; Region: PRK11670 360104001646 Domain of unknown function DUF59; Region: DUF59; cl00941 360104001647 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 360104001648 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 360104001649 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 360104001650 Protein of unknown function (DUF1440); Region: DUF1440; pfam07274 360104001651 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 360104001652 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 360104001653 putative trimer interface [polypeptide binding]; other site 360104001654 putative CoA binding site [chemical binding]; other site 360104001655 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 360104001656 conserved cys residue [active] 360104001657 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 360104001658 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 360104001659 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 360104001660 glutaminase active site [active] 360104001661 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 360104001662 dimer interface [polypeptide binding]; other site 360104001663 active site 360104001664 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 360104001665 dimer interface [polypeptide binding]; other site 360104001666 active site 360104001667 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 360104001668 metal binding triad; other site 360104001669 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 360104001670 ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; Region: ACT_UUR-ACR-like; cd04873 360104001671 hypothetical protein; Provisional; Region: PRK08444 360104001672 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 360104001673 FeS/SAM binding site; other site 360104001674 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 360104001675 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360104001676 active site 360104001677 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 360104001678 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 360104001679 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 360104001680 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 360104001681 active site 360104001682 catalytic nucleophile [active] 360104001683 dimer interface [polypeptide binding]; other site 360104001684 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 360104001685 HSP70 interaction site [polypeptide binding]; other site 360104001686 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 360104001687 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 360104001688 dimerization interface 3.5A [polypeptide binding]; other site 360104001689 active site 360104001690 Predicted permeases [General function prediction only]; Region: COG0795 360104001691 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 360104001692 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 360104001693 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 360104001694 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 360104001695 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 360104001696 catalytic residue [active] 360104001697 putative FPP diphosphate binding site; other site 360104001698 putative FPP binding hydrophobic cleft; other site 360104001699 dimer interface [polypeptide binding]; other site 360104001700 putative IPP diphosphate binding site; other site 360104001701 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 360104001702 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 360104001703 Substrate binding site; other site 360104001704 Mg++ binding site; other site 360104001705 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 360104001706 active site 360104001707 substrate binding site [chemical binding]; other site 360104001708 CoA binding site [chemical binding]; other site 360104001709 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 360104001710 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 360104001711 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360104001712 ligand binding site [chemical binding]; other site 360104001713 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 360104001714 Outer membrane efflux protein; Region: OEP; pfam02321 360104001715 Outer membrane efflux protein; Region: OEP; pfam02321 360104001716 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360104001717 HlyD family secretion protein; Region: HlyD_3; pfam13437 360104001718 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 360104001719 Protein export membrane protein; Region: SecD_SecF; cl14618 360104001720 Outer membrane efflux protein; Region: OEP; pfam02321 360104001721 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 360104001722 replicative DNA helicase; Provisional; Region: PRK08506 360104001723 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 360104001724 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 360104001725 Walker A motif; other site 360104001726 ATP binding site [chemical binding]; other site 360104001727 Walker B motif; other site 360104001728 DNA binding loops [nucleotide binding] 360104001729 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 360104001730 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 360104001731 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 360104001732 primosome assembly protein PriA; Validated; Region: PRK05580 360104001733 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 360104001734 ATP binding site [chemical binding]; other site 360104001735 putative Mg++ binding site [ion binding]; other site 360104001736 helicase superfamily c-terminal domain; Region: HELICc; smart00490 360104001737 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 360104001738 excinuclease ABC subunit B; Provisional; Region: PRK05298 360104001739 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 360104001740 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 360104001741 ATP-binding site [chemical binding]; other site 360104001742 ATP binding site [chemical binding]; other site 360104001743 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 360104001744 nucleotide binding region [chemical binding]; other site 360104001745 ATP-binding site [chemical binding]; other site 360104001746 Ultra-violet resistance protein B; Region: UvrB; pfam12344 360104001747 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 360104001748 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 360104001749 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360104001750 putative substrate translocation pore; other site 360104001751 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 360104001752 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 360104001753 oligomerisation interface [polypeptide binding]; other site 360104001754 mobile loop; other site 360104001755 roof hairpin; other site 360104001756 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 360104001757 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 360104001758 ring oligomerisation interface [polypeptide binding]; other site 360104001759 ATP/Mg binding site [chemical binding]; other site 360104001760 stacking interactions; other site 360104001761 hinge regions; other site 360104001762 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 360104001763 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 360104001764 active site 360104001765 substrate binding site [chemical binding]; other site 360104001766 metal binding site [ion binding]; metal-binding site 360104001767 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 360104001768 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 360104001769 substrate binding pocket [chemical binding]; other site 360104001770 membrane-bound complex binding site; other site 360104001771 hinge residues; other site 360104001772 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360104001773 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 360104001774 Walker A/P-loop; other site 360104001775 ATP binding site [chemical binding]; other site 360104001776 Q-loop/lid; other site 360104001777 ABC transporter signature motif; other site 360104001778 Walker B; other site 360104001779 D-loop; other site 360104001780 H-loop/switch region; other site 360104001781 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 360104001782 dimer interface [polypeptide binding]; other site 360104001783 conserved gate region; other site 360104001784 ABC-ATPase subunit interface; other site 360104001785 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 360104001786 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 360104001787 dimer interface [polypeptide binding]; other site 360104001788 conserved gate region; other site 360104001789 putative PBP binding loops; other site 360104001790 ABC-ATPase subunit interface; other site 360104001791 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 360104001792 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 360104001793 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 360104001794 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 360104001795 putative active site; other site 360104001796 catalytic triad [active] 360104001797 putative dimer interface [polypeptide binding]; other site 360104001798 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360104001799 ABC transporter signature motif; other site 360104001800 Walker B; other site 360104001801 D-loop; other site 360104001802 H-loop/switch region; other site 360104001803 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 360104001804 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 360104001805 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 360104001806 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 360104001807 DctM-like transporters; Region: DctM; pfam06808 360104001808 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360104001809 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 360104001810 TPR motif; other site 360104001811 binding surface 360104001812 Protein of unknown function DUF45; Region: DUF45; pfam01863 360104001813 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 360104001814 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 360104001815 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 360104001816 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360104001817 Walker A/P-loop; other site 360104001818 ATP binding site [chemical binding]; other site 360104001819 Q-loop/lid; other site 360104001820 ABC transporter signature motif; other site 360104001821 Walker B; other site 360104001822 D-loop; other site 360104001823 H-loop/switch region; other site 360104001824 ABC transporter; Region: ABC_tran_2; pfam12848 360104001825 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360104001826 DKNYY family; Region: DKNYY; pfam13644 360104001827 DKNYY family; Region: DKNYY; pfam13644 360104001828 BCCT family transporter; Region: BCCT; cl00569 360104001829 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 360104001830 Na2 binding site [ion binding]; other site 360104001831 putative substrate binding site 1 [chemical binding]; other site 360104001832 Na binding site 1 [ion binding]; other site 360104001833 putative substrate binding site 2 [chemical binding]; other site 360104001834 Peptidase family M48; Region: Peptidase_M48; pfam01435 360104001835 Uncharacterized conserved protein [Function unknown]; Region: COG2966 360104001836 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 360104001837 Protein of unknown function (DUF3815); Region: DUF3815; pfam12821 360104001838 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 360104001839 active site 360104001840 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 360104001841 ligand binding site [chemical binding]; other site 360104001842 active site 360104001843 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 360104001844 RNase P protein component [Translation, ribosomal structure and biogenesis]; Region: RnpA; COG0594 360104001845 Haemolytic domain; Region: Haemolytic; pfam01809 360104001846 membrane protein insertase; Provisional; Region: PRK01318 360104001847 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 360104001848 KH domain; Region: KH_4; pfam13083 360104001849 G-X-X-G motif; other site 360104001850 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 360104001851 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 360104001852 trmE is a tRNA modification GTPase; Region: trmE; cd04164 360104001853 G1 box; other site 360104001854 GTP/Mg2+ binding site [chemical binding]; other site 360104001855 Switch I region; other site 360104001856 G2 box; other site 360104001857 Switch II region; other site 360104001858 G3 box; other site 360104001859 G4 box; other site 360104001860 G5 box; other site 360104001861 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 360104001862 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 360104001863 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 360104001864 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 360104001865 active site 360104001866 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 360104001867 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 360104001868 putative metal binding site [ion binding]; other site 360104001869 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 360104001870 HSP70 interaction site [polypeptide binding]; other site 360104001871 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 360104001872 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 360104001873 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 360104001874 purine monophosphate binding site [chemical binding]; other site 360104001875 dimer interface [polypeptide binding]; other site 360104001876 putative catalytic residues [active] 360104001877 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 360104001878 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 360104001879 Peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: MsrA; COG0225 360104001880 methionine sulfoxide reductase B; Provisional; Region: PRK00222 360104001881 SelR domain; Region: SelR; pfam01641 360104001882 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 360104001883 cell division protein FtsZ; Validated; Region: PRK09330 360104001884 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 360104001885 nucleotide binding site [chemical binding]; other site 360104001886 SulA interaction site; other site 360104001887 cell division protein FtsA; Region: ftsA; TIGR01174 360104001888 Cell division protein FtsA; Region: FtsA; smart00842 360104001889 Cell division protein FtsA; Region: FtsA; pfam14450 360104001890 SurA N-terminal domain; Region: SurA_N_3; cl07813 360104001891 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 360104001892 hypothetical protein; Provisional; Region: PRK05834 360104001893 MraW methylase family; Region: Methyltransf_5; cl17771 360104001894 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 360104001895 Predicted membrane protein [Function unknown]; Region: COG1289 360104001896 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 360104001897 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 360104001898 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 360104001899 homodimer interface [polypeptide binding]; other site 360104001900 substrate-cofactor binding pocket; other site 360104001901 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104001902 catalytic residue [active] 360104001903 Uncharacterized conserved protein [Function unknown]; Region: COG1683 360104001904 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 360104001905 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 360104001906 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 360104001907 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 360104001908 NlpC/P60 family; Region: NLPC_P60; cl17555 360104001909 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 360104001910 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 360104001911 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 360104001912 AAA domain; Region: AAA_22; pfam13401 360104001913 Walker A motif; other site 360104001914 ATP binding site [chemical binding]; other site 360104001915 Walker B motif; other site 360104001916 Helicase; Region: Herpes_Helicase; pfam02689 360104001917 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 360104001918 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 360104001919 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 360104001920 DEAD/DEAH box helicase; Region: DEAD; pfam00270 360104001921 ATP binding site [chemical binding]; other site 360104001922 putative Mg++ binding site [ion binding]; other site 360104001923 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 360104001924 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 360104001925 nucleotide binding region [chemical binding]; other site 360104001926 ATP-binding site [chemical binding]; other site 360104001927 SEC-C motif; Region: SEC-C; pfam02810 360104001928 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 360104001929 FtsX-like permease family; Region: FtsX; pfam02687 360104001930 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 360104001931 RelB antitoxin; Region: RelB; cl01171 360104001932 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 360104001933 putative cation:proton antiport protein; Provisional; Region: PRK10669 360104001934 TrkA-N domain; Region: TrkA_N; pfam02254 360104001935 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 360104001936 DNA binding residues [nucleotide binding] 360104001937 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 360104001938 putative dimer interface [polypeptide binding]; other site 360104001939 chaperone protein DnaJ; Provisional; Region: PRK14299 360104001940 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 360104001941 HSP70 interaction site [polypeptide binding]; other site 360104001942 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 360104001943 substrate binding site [polypeptide binding]; other site 360104001944 dimer interface [polypeptide binding]; other site 360104001945 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 360104001946 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 360104001947 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 360104001948 protein binding site [polypeptide binding]; other site 360104001949 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 360104001950 protein binding site [polypeptide binding]; other site 360104001951 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360104001952 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 360104001953 active site 360104001954 phosphorylation site [posttranslational modification] 360104001955 intermolecular recognition site; other site 360104001956 dimerization interface [polypeptide binding]; other site 360104001957 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 360104001958 DNA binding site [nucleotide binding] 360104001959 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360104001960 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 360104001961 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 360104001962 dimer interface [polypeptide binding]; other site 360104001963 phosphorylation site [posttranslational modification] 360104001964 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 360104001965 ATP binding site [chemical binding]; other site 360104001966 Mg2+ binding site [ion binding]; other site 360104001967 G-X-G motif; other site 360104001968 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 360104001969 metal binding site [ion binding]; metal-binding site 360104001970 nucleotidyl binding site; other site 360104001971 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 360104001972 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 360104001973 homodimer interface [polypeptide binding]; other site 360104001974 substrate-cofactor binding pocket; other site 360104001975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104001976 catalytic residue [active] 360104001977 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 360104001978 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 360104001979 motif II; other site 360104001980 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 360104001981 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 360104001982 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 360104001983 tRNA; other site 360104001984 putative tRNA binding site [nucleotide binding]; other site 360104001985 putative NADP binding site [chemical binding]; other site 360104001986 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 360104001987 prolyl-tRNA synthetase; Provisional; Region: PRK09194 360104001988 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 360104001989 dimer interface [polypeptide binding]; other site 360104001990 motif 1; other site 360104001991 active site 360104001992 motif 2; other site 360104001993 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 360104001994 putative deacylase active site [active] 360104001995 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 360104001996 active site 360104001997 motif 3; other site 360104001998 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 360104001999 anticodon binding site; other site 360104002000 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 360104002001 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 360104002002 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 360104002003 domain interfaces; other site 360104002004 active site 360104002005 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 360104002006 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 360104002007 thiamine monophosphate kinase; Provisional; Region: PRK05731 360104002008 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 360104002009 ATP binding site [chemical binding]; other site 360104002010 dimerization interface [polypeptide binding]; other site 360104002011 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 360104002012 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 360104002013 Permutation of conserved domain; other site 360104002014 active site 360104002015 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 360104002016 catalytic triad [active] 360104002017 active site nucleophile [active] 360104002018 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 360104002019 dimerization interface [polypeptide binding]; other site 360104002020 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 360104002021 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360104002022 dimer interface [polypeptide binding]; other site 360104002023 putative CheW interface [polypeptide binding]; other site 360104002024 flagellar protein FliS; Validated; Region: fliS; PRK05685 360104002025 flagellar capping protein; Provisional; Region: PRK12765 360104002026 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 360104002027 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 360104002028 flagellar protein FlaG; Provisional; Region: PRK08452 360104002029 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 360104002030 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 360104002031 S-adenosylmethionine binding site [chemical binding]; other site 360104002032 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 360104002033 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 360104002034 Rod binding protein; Region: Rod-binding; cl01626 360104002035 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 360104002036 FlgN protein; Region: FlgN; pfam05130 360104002037 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 360104002038 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360104002039 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 360104002040 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 360104002041 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 360104002042 E-class dimer interface [polypeptide binding]; other site 360104002043 P-class dimer interface [polypeptide binding]; other site 360104002044 active site 360104002045 Cu2+ binding site [ion binding]; other site 360104002046 Zn2+ binding site [ion binding]; other site 360104002047 hypothetical protein; Provisional; Region: PRK10621 360104002048 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 360104002049 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 360104002050 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 360104002051 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 360104002052 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 360104002053 Na binding site [ion binding]; other site 360104002054 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 360104002055 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 360104002056 Predicted permeases [General function prediction only]; Region: RarD; COG2962 360104002057 EamA-like transporter family; Region: EamA; pfam00892 360104002058 Predicted permeases [General function prediction only]; Region: RarD; COG2962 360104002059 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 360104002060 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 360104002061 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 360104002062 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360104002063 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 360104002064 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 360104002065 Methyltransferase domain; Region: Methyltransf_31; pfam13847 360104002066 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 360104002067 S-adenosylmethionine binding site [chemical binding]; other site 360104002068 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 360104002069 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 360104002070 TPR motif; other site 360104002071 binding surface 360104002072 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 360104002073 nucleotide binding site/active site [active] 360104002074 HIT family signature motif; other site 360104002075 catalytic residue [active] 360104002076 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 360104002077 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 360104002078 active site residue [active] 360104002079 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08527 360104002080 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 360104002081 PYR/PP interface [polypeptide binding]; other site 360104002082 dimer interface [polypeptide binding]; other site 360104002083 TPP binding site [chemical binding]; other site 360104002084 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 360104002085 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 360104002086 TPP-binding site [chemical binding]; other site 360104002087 dimer interface [polypeptide binding]; other site 360104002088 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 360104002089 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 360104002090 putative valine binding site [chemical binding]; other site 360104002091 dimer interface [polypeptide binding]; other site 360104002092 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 360104002093 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 360104002094 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 360104002095 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 360104002096 trimer interface [polypeptide binding]; other site 360104002097 active site 360104002098 UDP-GlcNAc binding site [chemical binding]; other site 360104002099 lipid binding site [chemical binding]; lipid-binding site 360104002100 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 360104002101 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 360104002102 putative acyl-acceptor binding pocket; other site 360104002103 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 360104002104 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 360104002105 putative active site [active] 360104002106 catalytic triad [active] 360104002107 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; pfam02700 360104002108 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 360104002109 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 360104002110 ATP binding site [chemical binding]; other site 360104002111 active site 360104002112 substrate binding site [chemical binding]; other site 360104002113 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 360104002114 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 360104002115 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 360104002116 protein binding site [polypeptide binding]; other site 360104002117 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 360104002118 Catalytic dyad [active] 360104002119 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 360104002120 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 360104002121 Walker A motif; other site 360104002122 ATP binding site [chemical binding]; other site 360104002123 Walker B motif; other site 360104002124 arginine finger; other site 360104002125 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 360104002126 Walker A motif; other site 360104002127 ATP binding site [chemical binding]; other site 360104002128 Walker B motif; other site 360104002129 arginine finger; other site 360104002130 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 360104002131 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 360104002132 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 360104002133 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 360104002134 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 360104002135 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 360104002136 Permease; Region: Permease; pfam02405 360104002137 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360104002138 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360104002139 Walker A/P-loop; other site 360104002140 ATP binding site [chemical binding]; other site 360104002141 Q-loop/lid; other site 360104002142 ABC transporter signature motif; other site 360104002143 Walker B; other site 360104002144 D-loop; other site 360104002145 H-loop/switch region; other site 360104002146 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 360104002147 mce related protein; Region: MCE; pfam02470 360104002148 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 360104002149 TrkA-C domain; Region: TrkA_C; pfam02080 360104002150 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 360104002151 active site 360104002152 dimer interface [polypeptide binding]; other site 360104002153 metal binding site [ion binding]; metal-binding site 360104002154 Mechanosensitive ion channel; Region: MS_channel; pfam00924 360104002155 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 360104002156 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 360104002157 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 360104002158 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 360104002159 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 360104002160 Walker A motif; other site 360104002161 ATP binding site [chemical binding]; other site 360104002162 Walker B motif; other site 360104002163 arginine finger; other site 360104002164 Peptidase family M41; Region: Peptidase_M41; pfam01434 360104002165 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 360104002166 MPT binding site; other site 360104002167 trimer interface [polypeptide binding]; other site 360104002168 heat shock protein 90; Provisional; Region: PRK05218 360104002169 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 360104002170 ATP binding site [chemical binding]; other site 360104002171 Mg2+ binding site [ion binding]; other site 360104002172 G-X-G motif; other site 360104002173 Cytochrome P450; Region: p450; cl12078 360104002174 Protein of unknown function (DUF465); Region: DUF465; cl01070 360104002175 Ion channel; Region: Ion_trans_2; pfam07885 360104002176 TrkA-N domain; Region: TrkA_N; pfam02254 360104002177 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 360104002178 TrkA-C domain; Region: TrkA_C; pfam02080 360104002179 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 360104002180 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 360104002181 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 360104002182 active site 360104002183 catalytic site [active] 360104002184 substrate binding site [chemical binding]; other site 360104002185 hypothetical protein; Provisional; Region: PRK07338 360104002186 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 360104002187 metal binding site [ion binding]; metal-binding site 360104002188 dimer interface [polypeptide binding]; other site 360104002189 hypothetical protein; Provisional; Region: PRK10519 360104002190 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 360104002191 Nucleoside recognition; Region: Gate; pfam07670 360104002192 polyphosphate kinase; Provisional; Region: PRK05443 360104002193 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 360104002194 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 360104002195 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 360104002196 putative domain interface [polypeptide binding]; other site 360104002197 putative active site [active] 360104002198 catalytic site [active] 360104002199 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 360104002200 putative active site [active] 360104002201 catalytic site [active] 360104002202 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 360104002203 dimer interface [polypeptide binding]; other site 360104002204 ADP-ribose binding site [chemical binding]; other site 360104002205 active site 360104002206 nudix motif; other site 360104002207 metal binding site [ion binding]; metal-binding site 360104002208 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 360104002209 MgtE intracellular N domain; Region: MgtE_N; pfam03448 360104002210 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 360104002211 Divalent cation transporter; Region: MgtE; pfam01769 360104002212 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 360104002213 Peptidase family M23; Region: Peptidase_M23; pfam01551 360104002214 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 360104002215 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 360104002216 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 360104002217 active site 360104002218 metal binding site [ion binding]; metal-binding site 360104002219 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 360104002220 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 360104002221 NAD(P) binding site [chemical binding]; other site 360104002222 catalytic residues [active] 360104002223 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 360104002224 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360104002225 dimer interface [polypeptide binding]; other site 360104002226 phosphorylation site [posttranslational modification] 360104002227 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 360104002228 ATP binding site [chemical binding]; other site 360104002229 Mg2+ binding site [ion binding]; other site 360104002230 G-X-G motif; other site 360104002231 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360104002232 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 360104002233 active site 360104002234 phosphorylation site [posttranslational modification] 360104002235 intermolecular recognition site; other site 360104002236 dimerization interface [polypeptide binding]; other site 360104002237 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 360104002238 DNA binding site [nucleotide binding] 360104002239 Predicted permeases [General function prediction only]; Region: COG0679 360104002240 RloB-like protein; Region: RloB; pfam13707 360104002241 AAA domain; Region: AAA_21; pfam13304 360104002242 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 360104002243 Catalytic site [active] 360104002244 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 360104002245 IHF - DNA interface [nucleotide binding]; other site 360104002246 IHF dimer interface [polypeptide binding]; other site 360104002247 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 360104002248 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 360104002249 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 360104002250 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 360104002251 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 360104002252 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 360104002253 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 360104002254 Zonular occludens toxin (Zot); Region: Zot; cl17485 360104002255 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 360104002256 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360104002257 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 360104002258 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 360104002259 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 360104002260 active site 360104002261 catalytic residues [active] 360104002262 DNA binding site [nucleotide binding] 360104002263 Int/Topo IB signature motif; other site 360104002264 Yqey-like protein; Region: YqeY; pfam09424 360104002265 exopolyphosphatase; Region: exo_poly_only; TIGR03706 360104002266 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 360104002267 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 360104002268 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 360104002269 argininosuccinate synthase; Provisional; Region: PRK13820 360104002270 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 360104002271 ANP binding site [chemical binding]; other site 360104002272 Substrate Binding Site II [chemical binding]; other site 360104002273 Substrate Binding Site I [chemical binding]; other site 360104002274 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 360104002275 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 360104002276 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 360104002277 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 360104002278 active site 360104002279 HslU subunit interaction site [polypeptide binding]; other site 360104002280 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 360104002281 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 360104002282 Walker A motif; other site 360104002283 ATP binding site [chemical binding]; other site 360104002284 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 360104002285 Walker B motif; other site 360104002286 arginine finger; other site 360104002287 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 360104002288 GTPase Era; Reviewed; Region: era; PRK00089 360104002289 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 360104002290 G1 box; other site 360104002291 GTP/Mg2+ binding site [chemical binding]; other site 360104002292 Switch I region; other site 360104002293 G2 box; other site 360104002294 Switch II region; other site 360104002295 G3 box; other site 360104002296 G4 box; other site 360104002297 G5 box; other site 360104002298 KH domain; Region: KH_2; pfam07650 360104002299 Secretin and TonB N terminus short domain; Region: STN; pfam07660 360104002300 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 360104002301 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360104002302 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 360104002303 AAA domain; Region: AAA_22; pfam13401 360104002304 Walker A motif; other site 360104002305 ATP binding site [chemical binding]; other site 360104002306 Walker B motif; other site 360104002307 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 360104002308 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 360104002309 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 360104002310 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 360104002311 Walker A motif; other site 360104002312 ATP binding site [chemical binding]; other site 360104002313 Walker B motif; other site 360104002314 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 360104002315 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 360104002316 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 360104002317 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 360104002318 PAS domain; Region: PAS_9; pfam13426 360104002319 putative active site [active] 360104002320 heme pocket [chemical binding]; other site 360104002321 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360104002322 dimer interface [polypeptide binding]; other site 360104002323 putative CheW interface [polypeptide binding]; other site 360104002324 Ribosome-associated heat shock protein implicated in the recycling of the 50S subunit (S4 paralog) [Translation, ribosomal structure and biogenesis]; Region: COG1188 360104002325 RNA binding surface [nucleotide binding]; other site 360104002326 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 360104002327 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 360104002328 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 360104002329 Walker A/P-loop; other site 360104002330 ATP binding site [chemical binding]; other site 360104002331 Q-loop/lid; other site 360104002332 ABC transporter signature motif; other site 360104002333 Walker B; other site 360104002334 D-loop; other site 360104002335 H-loop/switch region; other site 360104002336 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 360104002337 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 360104002338 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 360104002339 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 360104002340 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 360104002341 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 360104002342 active site 360104002343 homodimer interface [polypeptide binding]; other site 360104002344 cell division protein FtsW; Region: ftsW; TIGR02614 360104002345 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 360104002346 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 360104002347 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 360104002348 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 360104002349 dimer interface [polypeptide binding]; other site 360104002350 conserved gate region; other site 360104002351 ABC-ATPase subunit interface; other site 360104002352 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 360104002353 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 360104002354 Walker A/P-loop; other site 360104002355 ATP binding site [chemical binding]; other site 360104002356 Q-loop/lid; other site 360104002357 ABC transporter signature motif; other site 360104002358 Walker B; other site 360104002359 D-loop; other site 360104002360 H-loop/switch region; other site 360104002361 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 360104002362 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 360104002363 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 360104002364 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 360104002365 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360104002366 active site 360104002367 HIGH motif; other site 360104002368 nucleotide binding site [chemical binding]; other site 360104002369 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360104002370 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 360104002371 active site 360104002372 KMSKS motif; other site 360104002373 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 360104002374 tRNA binding surface [nucleotide binding]; other site 360104002375 anticodon binding site; other site 360104002376 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 360104002377 MG2 domain; Region: A2M_N; pfam01835 360104002378 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 360104002379 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 360104002380 surface patch; other site 360104002381 thioester region; other site 360104002382 specificity defining residues; other site 360104002383 Transglycosylase; Region: Transgly; pfam00912 360104002384 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 360104002385 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 360104002386 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 360104002387 Part of AAA domain; Region: AAA_19; pfam13245 360104002388 Family description; Region: UvrD_C_2; pfam13538 360104002389 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 360104002390 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 360104002391 HlyD family secretion protein; Region: HlyD_3; pfam13437 360104002392 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 360104002393 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360104002394 Walker A/P-loop; other site 360104002395 ATP binding site [chemical binding]; other site 360104002396 Q-loop/lid; other site 360104002397 ABC transporter signature motif; other site 360104002398 Walker B; other site 360104002399 D-loop; other site 360104002400 H-loop/switch region; other site 360104002401 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 360104002402 FtsX-like permease family; Region: FtsX; pfam02687 360104002403 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 360104002404 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 360104002405 catalytic core [active] 360104002406 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 360104002407 dinuclear metal binding motif [ion binding]; other site 360104002408 Rhomboid family; Region: Rhomboid; pfam01694 360104002409 NlpC/P60 family; Region: NLPC_P60; cl17555 360104002410 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 360104002411 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 360104002412 hinge; other site 360104002413 active site 360104002414 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 360104002415 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 360104002416 dimer interface [polypeptide binding]; other site 360104002417 putative functional site; other site 360104002418 putative MPT binding site; other site 360104002419 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 360104002420 flagella basal body P-ring formation protein FlgA; Region: flgA_cterm; TIGR03170 360104002421 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 360104002422 Flavoprotein; Region: Flavoprotein; pfam02441 360104002423 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 360104002424 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 360104002425 active site 360104002426 (T/H)XGH motif; other site 360104002427 thymidylate kinase; Validated; Region: tmk; PRK00698 360104002428 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 360104002429 TMP-binding site; other site 360104002430 ATP-binding site [chemical binding]; other site 360104002431 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 360104002432 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 360104002433 dimer interface [polypeptide binding]; other site 360104002434 motif 1; other site 360104002435 active site 360104002436 motif 2; other site 360104002437 motif 3; other site 360104002438 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 360104002439 anticodon binding site; other site 360104002440 arginine decarboxylase; Provisional; Region: PRK05354 360104002441 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 360104002442 dimer interface [polypeptide binding]; other site 360104002443 active site 360104002444 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360104002445 catalytic residues [active] 360104002446 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 360104002447 aspartate aminotransferase; Provisional; Region: PRK05764 360104002448 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 360104002449 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104002450 homodimer interface [polypeptide binding]; other site 360104002451 catalytic residue [active] 360104002452 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 360104002453 thiS-thiF/thiG interaction site; other site 360104002454 ThiS-like ubiquitin; Region: ThiS-like; pfam14453 360104002455 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 360104002456 E1_ThiF_like. Member of superfamily of activating enzymes (E1) of the ubiquitin-like proteins. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on...; Region: E1_ThiF_like; cd01487 360104002457 putative ATP binding site [chemical binding]; other site 360104002458 putative substrate interface [chemical binding]; other site 360104002459 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 360104002460 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 360104002461 FeS/SAM binding site; other site 360104002462 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 360104002463 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 360104002464 active site 360104002465 thiamine phosphate binding site [chemical binding]; other site 360104002466 pyrophosphate binding site [ion binding]; other site 360104002467 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 360104002468 Cysteine-rich domain; Region: CCG; pfam02754 360104002469 Cysteine-rich domain; Region: CCG; pfam02754 360104002470 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 360104002471 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 360104002472 L-aspartate oxidase; Provisional; Region: PRK06175 360104002473 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 360104002474 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 360104002475 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 360104002476 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 360104002477 intersubunit interface [polypeptide binding]; other site 360104002478 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 360104002479 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 360104002480 Walker A/P-loop; other site 360104002481 ATP binding site [chemical binding]; other site 360104002482 Q-loop/lid; other site 360104002483 ABC transporter signature motif; other site 360104002484 Walker B; other site 360104002485 D-loop; other site 360104002486 H-loop/switch region; other site 360104002487 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 360104002488 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 360104002489 ABC-ATPase subunit interface; other site 360104002490 dimer interface [polypeptide binding]; other site 360104002491 putative PBP binding regions; other site 360104002492 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 360104002493 S-adenosylmethionine binding site [chemical binding]; other site 360104002494 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 360104002495 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 360104002496 N-terminal plug; other site 360104002497 ligand-binding site [chemical binding]; other site 360104002498 2-oxoglutarate-acceptor oxidoreductase subunit OorC; Reviewed; Region: oorC; PRK08441 360104002499 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 360104002500 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 360104002501 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 360104002502 TPP-binding site [chemical binding]; other site 360104002503 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 360104002504 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 360104002505 dimer interface [polypeptide binding]; other site 360104002506 PYR/PP interface [polypeptide binding]; other site 360104002507 TPP binding site [chemical binding]; other site 360104002508 substrate binding site [chemical binding]; other site 360104002509 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 360104002510 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 360104002511 malate dehydrogenase; Reviewed; Region: PRK06223 360104002512 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 360104002513 NAD(P) binding site [chemical binding]; other site 360104002514 LDH/MDH dimer interface [polypeptide binding]; other site 360104002515 substrate binding site [chemical binding]; other site 360104002516 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 360104002517 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 360104002518 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 360104002519 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 360104002520 dimerization interface [polypeptide binding]; other site 360104002521 Protein of unknown function; Region: DUF3971; pfam13116 360104002522 AsmA-like C-terminal region; Region: AsmA_1; pfam13109 360104002523 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 360104002524 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 360104002525 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 360104002526 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 360104002527 dimerization interface [polypeptide binding]; other site 360104002528 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 360104002529 ATP binding site [chemical binding]; other site 360104002530 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 360104002531 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 360104002532 HupF/HypC family; Region: HupF_HypC; pfam01455 360104002533 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 360104002534 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 360104002535 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 360104002536 nickel responsive regulator; Provisional; Region: PRK00630 360104002537 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 360104002538 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 360104002539 Acylphosphatase; Region: Acylphosphatase; pfam00708 360104002540 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 360104002541 HypF finger; Region: zf-HYPF; pfam07503 360104002542 HypF finger; Region: zf-HYPF; pfam07503 360104002543 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 360104002544 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 360104002545 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 360104002546 putative substrate-binding site; other site 360104002547 nickel binding site [ion binding]; other site 360104002548 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 360104002549 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 360104002550 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 360104002551 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 360104002552 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 360104002553 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 360104002554 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 360104002555 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 360104002556 propionate/acetate kinase; Provisional; Region: PRK12379 360104002557 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 360104002558 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 360104002559 active site 360104002560 DNA binding site [nucleotide binding] 360104002561 Int/Topo IB signature motif; other site 360104002562 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 360104002563 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360104002564 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 360104002565 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14601 360104002566 RuvA N terminal domain; Region: RuvA_N; pfam01330 360104002567 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 360104002568 DNA binding site [nucleotide binding] 360104002569 metal binding site [ion binding]; metal-binding site 360104002570 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 360104002571 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 360104002572 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 360104002573 active site 360104002574 HIGH motif; other site 360104002575 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 360104002576 KMSKS motif; other site 360104002577 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 360104002578 tRNA binding surface [nucleotide binding]; other site 360104002579 anticodon binding site; other site 360104002580 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 360104002581 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 360104002582 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360104002583 Walker A/P-loop; other site 360104002584 ATP binding site [chemical binding]; other site 360104002585 Q-loop/lid; other site 360104002586 ABC transporter signature motif; other site 360104002587 Walker B; other site 360104002588 D-loop; other site 360104002589 H-loop/switch region; other site 360104002590 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 360104002591 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 360104002592 quinone interaction residues [chemical binding]; other site 360104002593 active site 360104002594 catalytic residues [active] 360104002595 FMN binding site [chemical binding]; other site 360104002596 substrate binding site [chemical binding]; other site 360104002597 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 360104002598 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 360104002599 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 360104002600 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 360104002601 dihydrodipicolinate synthase; Region: dapA; TIGR00674 360104002602 dimer interface [polypeptide binding]; other site 360104002603 active site 360104002604 catalytic residue [active] 360104002605 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 360104002606 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104002607 NAD(P) binding site [chemical binding]; other site 360104002608 active site 360104002609 CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase; Region: pgsA; TIGR00560 360104002610 Domain of unknown function DUF20; Region: UPF0118; pfam01594 360104002611 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 360104002612 RIP metalloprotease RseP; Region: TIGR00054 360104002613 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 360104002614 active site 360104002615 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 360104002616 protein binding site [polypeptide binding]; other site 360104002617 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 360104002618 putative substrate binding region [chemical binding]; other site 360104002619 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 360104002620 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360104002621 catalytic residue [active] 360104002622 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360104002623 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 360104002624 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 360104002625 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 360104002626 phosphodiesterase; Provisional; Region: PRK12704 360104002627 KH domain; Region: KH_1; pfam00013 360104002628 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 360104002629 Zn2+ binding site [ion binding]; other site 360104002630 Mg2+ binding site [ion binding]; other site 360104002631 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 360104002632 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 360104002633 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 360104002634 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360104002635 catalytic residues [active] 360104002636 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 360104002637 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 360104002638 P loop; other site 360104002639 GTP binding site [chemical binding]; other site 360104002640 VanZ like family; Region: VanZ; cl01971 360104002641 DNA repair protein RadA; Provisional; Region: PRK11823 360104002642 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 360104002643 Walker A motif/ATP binding site; other site 360104002644 ATP binding site [chemical binding]; other site 360104002645 Walker B motif; other site 360104002646 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 360104002647 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 360104002648 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK08455 360104002649 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 360104002650 putative deacylase active site [active] 360104002651 Uncharacterized conserved protein [Function unknown]; Region: COG1565 360104002652 Predicted membrane protein [Function unknown]; Region: COG2860 360104002653 UPF0126 domain; Region: UPF0126; pfam03458 360104002654 UPF0126 domain; Region: UPF0126; pfam03458 360104002655 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 360104002656 putative amphipathic alpha helix; other site 360104002657 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 360104002658 metal binding site 2 [ion binding]; metal-binding site 360104002659 putative DNA binding helix; other site 360104002660 metal binding site 1 [ion binding]; metal-binding site 360104002661 dimer interface [polypeptide binding]; other site 360104002662 structural Zn2+ binding site [ion binding]; other site 360104002663 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 360104002664 dinuclear metal binding motif [ion binding]; other site 360104002665 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 360104002666 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 360104002667 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 360104002668 Soluble P-type ATPase [General function prediction only]; Region: COG4087 360104002669 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 360104002670 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 360104002671 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 360104002672 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 360104002673 active site 360104002674 Nitrate and nitrite sensing; Region: NIT; pfam08376 360104002675 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360104002676 dimer interface [polypeptide binding]; other site 360104002677 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 360104002678 putative CheW interface [polypeptide binding]; other site 360104002679 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 360104002680 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 360104002681 molybdopterin cofactor binding site [chemical binding]; other site 360104002682 substrate binding site [chemical binding]; other site 360104002683 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 360104002684 molybdopterin cofactor binding site; other site 360104002685 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 360104002686 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 360104002687 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 360104002688 molybdopterin cofactor binding site [chemical binding]; other site 360104002689 substrate binding site [chemical binding]; other site 360104002690 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 360104002691 molybdopterin cofactor binding site; other site 360104002692 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 360104002693 Predicted membrane protein [Function unknown]; Region: COG2510 360104002694 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 360104002695 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 360104002696 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 360104002697 threonine dehydratase; Provisional; Region: PRK08526 360104002698 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 360104002699 tetramer interface [polypeptide binding]; other site 360104002700 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104002701 catalytic residue [active] 360104002702 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 360104002703 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 360104002704 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 360104002705 S-adenosylmethionine binding site [chemical binding]; other site 360104002706 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 360104002707 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 360104002708 malonic semialdehyde reductase; Provisional; Region: PRK10538 360104002709 putative NAD(P) binding site [chemical binding]; other site 360104002710 homotetramer interface [polypeptide binding]; other site 360104002711 homodimer interface [polypeptide binding]; other site 360104002712 active site 360104002713 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 360104002714 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 360104002715 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 360104002716 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 360104002717 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 360104002718 substrate binding site [chemical binding]; other site 360104002719 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 360104002720 substrate binding site [chemical binding]; other site 360104002721 ligand binding site [chemical binding]; other site 360104002722 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 360104002723 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 360104002724 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 360104002725 DNA binding site [nucleotide binding] 360104002726 active site 360104002727 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 360104002728 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 360104002729 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 360104002730 ATP binding site [chemical binding]; other site 360104002731 putative Mg++ binding site [ion binding]; other site 360104002732 Ubiquitin-like proteins; Region: UBQ; cl00155 360104002733 charged pocket; other site 360104002734 hydrophobic patch; other site 360104002735 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 360104002736 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 360104002737 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 360104002738 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 360104002739 HsdM N-terminal domain; Region: HsdM_N; pfam12161 360104002740 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 360104002741 S-adenosylmethionine binding site [chemical binding]; other site 360104002742 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 360104002743 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 360104002744 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; cl00522 360104002745 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 360104002746 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 360104002747 Family of unknown function (DUF694); Region: DUF694; pfam05107 360104002748 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 360104002749 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cd09693 360104002750 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 360104002751 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 360104002752 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 360104002753 Domain of unknown function DUF83; Region: Cas_Cas4; pfam01930 360104002754 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 360104002755 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 360104002756 Predicted transcriptional regulator [Transcription]; Region: COG3636; cl17681 360104002757 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 360104002758 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 360104002759 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 360104002760 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 360104002761 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 360104002762 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 360104002763 RimM N-terminal domain; Region: RimM; pfam01782 360104002764 PRC-barrel domain; Region: PRC; pfam05239 360104002765 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 360104002766 KH domain; Region: KH_4; pfam13083 360104002767 G-X-X-G motif; other site 360104002768 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 360104002769 signal recognition particle protein; Provisional; Region: PRK10867 360104002770 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 360104002771 P loop; other site 360104002772 GTP binding site [chemical binding]; other site 360104002773 Signal peptide binding domain; Region: SRP_SPB; pfam02978 360104002774 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 360104002775 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 360104002776 active site 360104002777 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 360104002778 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 360104002779 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 360104002780 Putative zinc ribbon domain; Region: DUF164; pfam02591 360104002781 Uncharacterized conserved protein [Function unknown]; Region: COG0327 360104002782 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 360104002783 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 360104002784 dimer interface [polypeptide binding]; other site 360104002785 motif 1; other site 360104002786 active site 360104002787 motif 2; other site 360104002788 motif 3; other site 360104002789 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 360104002790 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 360104002791 histidinol-phosphatase; Provisional; Region: PRK07328 360104002792 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 360104002793 active site 360104002794 dimer interface [polypeptide binding]; other site 360104002795 glutamine synthetase, type I; Region: GlnA; TIGR00653 360104002796 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 360104002797 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 360104002798 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 360104002799 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 360104002800 Walker A motif; other site 360104002801 ATP binding site [chemical binding]; other site 360104002802 Walker B motif; other site 360104002803 Lysine efflux permease [General function prediction only]; Region: COG1279 360104002804 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 360104002805 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 360104002806 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 360104002807 metal-binding site [ion binding] 360104002808 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 360104002809 Soluble P-type ATPase [General function prediction only]; Region: COG4087 360104002810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 360104002811 YheO-like PAS domain; Region: PAS_6; pfam08348 360104002812 HTH domain; Region: HTH_22; pfam13309 360104002813 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 360104002814 homotrimer interaction site [polypeptide binding]; other site 360104002815 putative active site [active] 360104002816 threonine synthase; Validated; Region: PRK06450 360104002817 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 360104002818 homodimer interface [polypeptide binding]; other site 360104002819 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104002820 catalytic residue [active] 360104002821 transcription termination factor Rho; Provisional; Region: rho; PRK09376 360104002822 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 360104002823 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 360104002824 RNA binding site [nucleotide binding]; other site 360104002825 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 360104002826 multimer interface [polypeptide binding]; other site 360104002827 Walker A motif; other site 360104002828 ATP binding site [chemical binding]; other site 360104002829 Walker B motif; other site 360104002830 Transposase; Region: HTH_Tnp_1; cl17663 360104002831 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 360104002832 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 360104002833 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360104002834 Coenzyme A binding pocket [chemical binding]; other site 360104002835 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 360104002836 NusA N-terminal domain; Region: NusA_N; pfam08529 360104002837 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 360104002838 RNA binding site [nucleotide binding]; other site 360104002839 homodimer interface [polypeptide binding]; other site 360104002840 NusA-like KH domain; Region: KH_5; pfam13184 360104002841 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 360104002842 G-X-X-G motif; other site 360104002843 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 360104002844 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 360104002845 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 360104002846 FeS/SAM binding site; other site 360104002847 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 360104002848 putative acyl-acceptor binding pocket; other site 360104002849 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 360104002850 DNA binding site [nucleotide binding] 360104002851 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360104002852 Sel1-like repeats; Region: SEL1; smart00671 360104002853 Sel1-like repeats; Region: SEL1; smart00671 360104002854 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 360104002855 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360104002856 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 360104002857 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360104002858 Sel1-like repeats; Region: SEL1; smart00671 360104002859 peptide chain release factor 2; Validated; Region: prfB; PRK00578 360104002860 PCRF domain; Region: PCRF; pfam03462 360104002861 RF-1 domain; Region: RF-1; pfam00472 360104002862 pantoate--beta-alanine ligase; Region: panC; TIGR00018 360104002863 Pantoate-beta-alanine ligase; Region: PanC; cd00560 360104002864 active site 360104002865 ATP-binding site [chemical binding]; other site 360104002866 pantoate-binding site; other site 360104002867 HXXH motif; other site 360104002868 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 360104002869 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 360104002870 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 360104002871 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 360104002872 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 360104002873 Ligand Binding Site [chemical binding]; other site 360104002874 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 360104002875 dimer interface [polypeptide binding]; other site 360104002876 active site 360104002877 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 360104002878 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 360104002879 putative ribose interaction site [chemical binding]; other site 360104002880 putative ADP binding site [chemical binding]; other site 360104002881 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 360104002882 active site 360104002883 nucleotide binding site [chemical binding]; other site 360104002884 HIGH motif; other site 360104002885 KMSKS motif; other site 360104002886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104002887 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 360104002888 NAD(P) binding site [chemical binding]; other site 360104002889 active site 360104002890 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 360104002891 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 360104002892 active site 360104002893 motif I; other site 360104002894 motif II; other site 360104002895 Cytochrome c; Region: Cytochrom_C; cl11414 360104002896 serine O-acetyltransferase; Region: cysE; TIGR01172 360104002897 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 360104002898 trimer interface [polypeptide binding]; other site 360104002899 active site 360104002900 substrate binding site [chemical binding]; other site 360104002901 CoA binding site [chemical binding]; other site 360104002902 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 360104002903 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 360104002904 dimer interface [polypeptide binding]; other site 360104002905 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104002906 catalytic residue [active] 360104002907 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 360104002908 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 360104002909 minor groove reading motif; other site 360104002910 helix-hairpin-helix signature motif; other site 360104002911 active site 360104002912 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 360104002913 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 360104002914 Walker A motif; other site 360104002915 ATP binding site [chemical binding]; other site 360104002916 Walker B motif; other site 360104002917 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 360104002918 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 360104002919 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 360104002920 ATP binding site [chemical binding]; other site 360104002921 putative Mg++ binding site [ion binding]; other site 360104002922 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 360104002923 nucleotide binding region [chemical binding]; other site 360104002924 ATP-binding site [chemical binding]; other site 360104002925 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 360104002926 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 360104002927 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360104002928 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360104002929 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104002930 metal binding site [ion binding]; metal-binding site 360104002931 active site 360104002932 I-site; other site 360104002933 Lipopolysaccharide-assembly; Region: LptE; pfam04390 360104002934 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 360104002935 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 360104002936 HIGH motif; other site 360104002937 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360104002938 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360104002939 active site 360104002940 KMSKS motif; other site 360104002941 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 360104002942 tRNA binding surface [nucleotide binding]; other site 360104002943 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 360104002944 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 360104002945 Protein export membrane protein; Region: SecD_SecF; pfam02355 360104002946 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 360104002947 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 360104002948 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 360104002949 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 360104002950 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 360104002951 active site 360104002952 catalytic triad [active] 360104002953 S-adenosylmethionine synthetase; Validated; Region: PRK05250 360104002954 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 360104002955 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 360104002956 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 360104002957 serine/threonine transporter SstT; Provisional; Region: PRK13628 360104002958 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 360104002959 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 360104002960 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 360104002961 active site 360104002962 Zn binding site [ion binding]; other site 360104002963 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 360104002964 Part of AAA domain; Region: AAA_19; pfam13245 360104002965 Family description; Region: UvrD_C_2; pfam13538 360104002966 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK04099 360104002967 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 360104002968 RNA binding site [nucleotide binding]; other site 360104002969 active site 360104002970 Global regulator protein family; Region: CsrA; cl00670 360104002971 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 360104002972 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 360104002973 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 360104002974 SmpB-tmRNA interface; other site 360104002975 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 360104002976 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 360104002977 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 360104002978 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 360104002979 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360104002980 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360104002981 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK03907 360104002982 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 360104002983 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 360104002984 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 360104002985 ferrochelatase; Reviewed; Region: hemH; PRK00035 360104002986 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 360104002987 C-terminal domain interface [polypeptide binding]; other site 360104002988 active site 360104002989 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 360104002990 active site 360104002991 N-terminal domain interface [polypeptide binding]; other site 360104002992 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 360104002993 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 360104002994 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 360104002995 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 360104002996 motif 1; other site 360104002997 active site 360104002998 motif 2; other site 360104002999 motif 3; other site 360104003000 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 360104003001 DHHA1 domain; Region: DHHA1; pfam02272 360104003002 Maf-like protein; Region: Maf; pfam02545 360104003003 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 360104003004 active site 360104003005 dimer interface [polypeptide binding]; other site 360104003006 Transglycosylase; Region: Transgly; pfam00912 360104003007 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 360104003008 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 360104003009 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 360104003010 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 360104003011 Sulfatase; Region: Sulfatase; cl17466 360104003012 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 360104003013 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 360104003014 putative catalytic site [active] 360104003015 putative metal binding site [ion binding]; other site 360104003016 putative phosphate binding site [ion binding]; other site 360104003017 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 360104003018 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 360104003019 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 360104003020 active site 360104003021 NTP binding site [chemical binding]; other site 360104003022 metal binding triad [ion binding]; metal-binding site 360104003023 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 360104003024 tartrate dehydrogenase; Region: TTC; TIGR02089 360104003025 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 360104003026 3-isopropylmalate dehydratase small subunit; Reviewed; Region: leuD; PRK00439 360104003027 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 360104003028 substrate binding site [chemical binding]; other site 360104003029 Domain of unknown function (DUF4299); Region: DUF4299; pfam14132 360104003030 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 360104003031 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 360104003032 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 360104003033 active site 360104003034 homodimer interface [polypeptide binding]; other site 360104003035 homotetramer interface [polypeptide binding]; other site 360104003036 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 360104003037 Sel1-like repeats; Region: SEL1; smart00671 360104003038 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360104003039 Sel1-like repeats; Region: SEL1; smart00671 360104003040 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 360104003041 binding surface 360104003042 TPR motif; other site 360104003043 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 360104003044 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360104003045 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360104003046 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 360104003047 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360104003048 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360104003049 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 360104003050 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 360104003051 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360104003052 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 360104003053 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 360104003054 DNA binding residues [nucleotide binding] 360104003055 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 360104003056 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 360104003057 histidinol dehydrogenase; Region: hisD; TIGR00069 360104003058 NAD binding site [chemical binding]; other site 360104003059 dimerization interface [polypeptide binding]; other site 360104003060 product binding site; other site 360104003061 substrate binding site [chemical binding]; other site 360104003062 zinc binding site [ion binding]; other site 360104003063 catalytic residues [active] 360104003064 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 360104003065 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 360104003066 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360104003067 catalytic residue [active] 360104003068 hypothetical protein; Validated; Region: PRK09039 360104003069 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360104003070 ligand binding site [chemical binding]; other site 360104003071 AAA domain; Region: AAA_13; pfam13166 360104003072 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 360104003073 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 360104003074 active site 360104003075 intersubunit interface [polypeptide binding]; other site 360104003076 zinc binding site [ion binding]; other site 360104003077 Na+ binding site [ion binding]; other site 360104003078 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 360104003079 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 360104003080 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 360104003081 metal-binding site [ion binding] 360104003082 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 360104003083 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 360104003084 Methyltransferase domain; Region: Methyltransf_23; pfam13489 360104003085 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 360104003086 S-adenosylmethionine binding site [chemical binding]; other site 360104003087 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 360104003088 active site 2 [active] 360104003089 active site 1 [active] 360104003090 Campylobacter major outer membrane protein; Region: Campylo_MOMP; pfam05538 360104003091 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 360104003092 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 360104003093 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 360104003094 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 360104003095 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 360104003096 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 360104003097 DsbD alpha interface [polypeptide binding]; other site 360104003098 catalytic residues [active] 360104003099 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 360104003100 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 360104003101 Ligand binding site; other site 360104003102 oligomer interface; other site 360104003103 threonine synthase; Validated; Region: PRK09225 360104003104 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 360104003105 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360104003106 catalytic residue [active] 360104003107 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 360104003108 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 360104003109 inhibitor-cofactor binding pocket; inhibition site 360104003110 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104003111 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 360104003112 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 360104003113 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 360104003114 nucleotide binding site [chemical binding]; other site 360104003115 NEF interaction site [polypeptide binding]; other site 360104003116 SBD interface [polypeptide binding]; other site 360104003117 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 360104003118 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 360104003119 dimer interface [polypeptide binding]; other site 360104003120 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 360104003121 heat-inducible transcription repressor; Provisional; Region: PRK03911 360104003122 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 360104003123 sequence-specific DNA binding site [nucleotide binding]; other site 360104003124 salt bridge; other site 360104003125 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 360104003126 dihydroorotase; Validated; Region: pyrC; PRK09357 360104003127 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 360104003128 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 360104003129 active site 360104003130 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 360104003131 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 360104003132 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 360104003133 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360104003134 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 360104003135 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 360104003136 FHIPEP family; Region: FHIPEP; pfam00771 360104003137 FHIPEP family; Region: FHIPEP; pfam00771 360104003138 Rrf2 family protein; Region: rrf2_super; TIGR00738 360104003139 Transcriptional regulator; Region: Rrf2; pfam02082 360104003140 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 360104003141 16S/18S rRNA binding site [nucleotide binding]; other site 360104003142 S13e-L30e interaction site [polypeptide binding]; other site 360104003143 25S rRNA binding site [nucleotide binding]; other site 360104003144 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 360104003145 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 360104003146 molybdopterin cofactor binding site; other site 360104003147 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 360104003148 molybdopterin cofactor binding site; other site 360104003149 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 360104003150 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 360104003151 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 360104003152 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 360104003153 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 360104003154 active site 360104003155 Riboflavin kinase; Region: Flavokinase; smart00904 360104003156 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 360104003157 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 360104003158 RNA binding surface [nucleotide binding]; other site 360104003159 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 360104003160 S-adenosylmethionine binding site [chemical binding]; other site 360104003161 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 360104003162 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 360104003163 nucleotide binding pocket [chemical binding]; other site 360104003164 K-X-D-G motif; other site 360104003165 catalytic site [active] 360104003166 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 360104003167 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 360104003168 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 360104003169 Dimer interface [polypeptide binding]; other site 360104003170 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 360104003171 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 360104003172 dihydropteroate synthase; Region: DHPS; TIGR01496 360104003173 substrate binding pocket [chemical binding]; other site 360104003174 dimer interface [polypeptide binding]; other site 360104003175 inhibitor binding site; inhibition site 360104003176 DNA polymerase III subunit delta'; Validated; Region: PRK08485 360104003177 DNA replication regulator; Region: HobA; pfam12163 360104003178 aspartate kinase; Reviewed; Region: PRK06635 360104003179 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 360104003180 putative nucleotide binding site [chemical binding]; other site 360104003181 putative catalytic residues [active] 360104003182 putative Mg ion binding site [ion binding]; other site 360104003183 putative aspartate binding site [chemical binding]; other site 360104003184 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 360104003185 putative allosteric regulatory site; other site 360104003186 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 360104003187 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 360104003188 putative active site [active] 360104003189 Ap4A binding site [chemical binding]; other site 360104003190 nudix motif; other site 360104003191 putative metal binding site [ion binding]; other site 360104003192 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 360104003193 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 360104003194 sec-independent translocase; Provisional; Region: PRK04098 360104003195 DNA protecting protein DprA; Region: dprA; TIGR00732 360104003196 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 360104003197 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 360104003198 NodB motif; other site 360104003199 putative active site [active] 360104003200 putative catalytic site [active] 360104003201 Zn binding site [ion binding]; other site 360104003202 ketol-acid reductoisomerase; Provisional; Region: PRK05479 360104003203 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 360104003204 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 360104003205 HDOD domain; Region: HDOD; pfam08668 360104003206 ribonuclease R; Region: RNase_R; TIGR02063 360104003207 RNB domain; Region: RNB; pfam00773 360104003208 DNA polymerase III subunit delta; Validated; Region: PRK08487 360104003209 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 360104003210 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 360104003211 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 360104003212 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 360104003213 dimer interface [polypeptide binding]; other site 360104003214 ssDNA binding site [nucleotide binding]; other site 360104003215 tetramer (dimer of dimers) interface [polypeptide binding]; other site 360104003216 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 360104003217 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 360104003218 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 360104003219 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 360104003220 Protein of unknown function (DUF1352); Region: DUF1352; pfam07086 360104003221 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 360104003222 G1 box; other site 360104003223 GTP/Mg2+ binding site [chemical binding]; other site 360104003224 Switch I region; other site 360104003225 G2 box; other site 360104003226 G3 box; other site 360104003227 Switch II region; other site 360104003228 G4 box; other site 360104003229 G5 box; other site 360104003230 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 360104003231 OstA-like protein; Region: OstA; pfam03968 360104003232 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 360104003233 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 360104003234 active site 360104003235 motif I; other site 360104003236 motif II; other site 360104003237 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 360104003238 putative active site pocket [active] 360104003239 4-fold oligomerization interface [polypeptide binding]; other site 360104003240 metal binding residues [ion binding]; metal-binding site 360104003241 3-fold/trimer interface [polypeptide binding]; other site 360104003242 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 360104003243 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 360104003244 Sporulation related domain; Region: SPOR; pfam05036 360104003245 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 360104003246 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360104003247 catalytic residue [active] 360104003248 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 360104003249 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 360104003250 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 360104003251 active site 360104003252 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 360104003253 active site 360104003254 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 360104003255 phosphorylation site [posttranslational modification] 360104003256 intermolecular recognition site; other site 360104003257 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 360104003258 active site 360104003259 phosphorylation site [posttranslational modification] 360104003260 intermolecular recognition site; other site 360104003261 dimerization interface [polypeptide binding]; other site 360104003262 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104003263 metal binding site [ion binding]; metal-binding site 360104003264 active site 360104003265 I-site; other site 360104003266 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 360104003267 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360104003268 Walker A/P-loop; other site 360104003269 ATP binding site [chemical binding]; other site 360104003270 Q-loop/lid; other site 360104003271 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 360104003272 ABC transporter signature motif; other site 360104003273 Walker B; other site 360104003274 D-loop; other site 360104003275 H-loop/switch region; other site 360104003276 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: pnk; PRK14077 360104003277 ATP-NAD kinase; Region: NAD_kinase; pfam01513 360104003278 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 360104003279 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 360104003280 dimer interface [polypeptide binding]; other site 360104003281 anticodon binding site; other site 360104003282 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 360104003283 homodimer interface [polypeptide binding]; other site 360104003284 motif 1; other site 360104003285 active site 360104003286 motif 2; other site 360104003287 GAD domain; Region: GAD; pfam02938 360104003288 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 360104003289 active site 360104003290 motif 3; other site 360104003291 adenylate kinase; Reviewed; Region: adk; PRK00279 360104003292 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 360104003293 AMP-binding site [chemical binding]; other site 360104003294 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 360104003295 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 360104003296 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 360104003297 dimer interface [polypeptide binding]; other site 360104003298 substrate binding site [chemical binding]; other site 360104003299 metal binding sites [ion binding]; metal-binding site 360104003300 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 360104003301 Autotransporter beta-domain; Region: Autotransporter; pfam03797 360104003302 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 360104003303 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 360104003304 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360104003305 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 360104003306 Radical SAM superfamily; Region: Radical_SAM; pfam04055 360104003307 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 360104003308 FeS/SAM binding site; other site 360104003309 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360104003310 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 360104003311 dimerization interface [polypeptide binding]; other site 360104003312 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 360104003313 dimer interface [polypeptide binding]; other site 360104003314 phosphorylation site [posttranslational modification] 360104003315 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 360104003316 ATP binding site [chemical binding]; other site 360104003317 Mg2+ binding site [ion binding]; other site 360104003318 G-X-G motif; other site 360104003319 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360104003320 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 360104003321 active site 360104003322 phosphorylation site [posttranslational modification] 360104003323 intermolecular recognition site; other site 360104003324 dimerization interface [polypeptide binding]; other site 360104003325 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 360104003326 DNA binding site [nucleotide binding] 360104003327 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 360104003328 Predicted membrane protein [Function unknown]; Region: COG3212 360104003329 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 360104003330 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 360104003331 30S subunit binding site; other site 360104003332 flagellar assembly protein FliW; Provisional; Region: PRK13282 360104003333 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 360104003334 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 360104003335 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 360104003336 Walker A motif; other site 360104003337 ATP binding site [chemical binding]; other site 360104003338 Walker B motif; other site 360104003339 arginine finger; other site 360104003340 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 360104003341 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360104003342 dimer interface [polypeptide binding]; other site 360104003343 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 360104003344 putative CheW interface [polypeptide binding]; other site 360104003345 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 360104003346 dimer interface [polypeptide binding]; other site 360104003347 pyridoxal binding site [chemical binding]; other site 360104003348 ATP binding site [chemical binding]; other site 360104003349 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 360104003350 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 360104003351 FeS/SAM binding site; other site 360104003352 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 360104003353 substrate binding site [chemical binding]; other site 360104003354 active site 360104003355 Predicted membrane protein [Function unknown]; Region: COG2862 360104003356 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 360104003357 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 360104003358 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360104003359 active site 360104003360 Protein of unknown function, DUF488; Region: DUF488; cl01246 360104003361 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 360104003362 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 360104003363 Ligand Binding Site [chemical binding]; other site 360104003364 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 360104003365 flagellar motor switch protein FliY; Validated; Region: PRK08432 360104003366 flagellar motor switch protein FliN; Region: fliN; TIGR02480 360104003367 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 360104003368 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 360104003369 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 360104003370 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360104003371 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 360104003372 DNA binding residues [nucleotide binding] 360104003373 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 360104003374 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 360104003375 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 360104003376 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 360104003377 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 360104003378 catalytic center binding site [active] 360104003379 ATP binding site [chemical binding]; other site 360104003380 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 360104003381 methionine aminopeptidase; Provisional; Region: PRK12318 360104003382 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 360104003383 active site 360104003384 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 360104003385 Dehydroquinase class II; Region: DHquinase_II; pfam01220 360104003386 trimer interface [polypeptide binding]; other site 360104003387 active site 360104003388 dimer interface [polypeptide binding]; other site 360104003389 chlorohydrolase; Provisional; Region: PRK08418 360104003390 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 360104003391 active site 360104003392 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 360104003393 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 360104003394 tandem repeat interface [polypeptide binding]; other site 360104003395 oligomer interface [polypeptide binding]; other site 360104003396 active site residues [active] 360104003397 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 360104003398 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 360104003399 oligomerization interface [polypeptide binding]; other site 360104003400 active site 360104003401 metal binding site [ion binding]; metal-binding site 360104003402 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 360104003403 HIT family signature motif; other site 360104003404 catalytic residue [active] 360104003405 Domain of unknown function DUF20; Region: UPF0118; pfam01594 360104003406 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 360104003407 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 360104003408 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 360104003409 Walker A motif; other site 360104003410 ATP binding site [chemical binding]; other site 360104003411 Walker B motif; other site 360104003412 arginine finger; other site 360104003413 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 360104003414 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360104003415 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 360104003416 dimer interface [polypeptide binding]; other site 360104003417 phosphorylation site [posttranslational modification] 360104003418 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 360104003419 ATP binding site [chemical binding]; other site 360104003420 Mg2+ binding site [ion binding]; other site 360104003421 G-X-G motif; other site 360104003422 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360104003423 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 360104003424 active site 360104003425 phosphorylation site [posttranslational modification] 360104003426 intermolecular recognition site; other site 360104003427 dimerization interface [polypeptide binding]; other site 360104003428 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 360104003429 DNA binding site [nucleotide binding] 360104003430 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 360104003431 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 360104003432 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 360104003433 thiosulfate reductase PhsA; Provisional; Region: PRK15488 360104003434 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 360104003435 putative [Fe4-S4] binding site [ion binding]; other site 360104003436 putative molybdopterin cofactor binding site [chemical binding]; other site 360104003437 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 360104003438 putative molybdopterin cofactor binding site; other site 360104003439 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 360104003440 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 360104003441 Aspartase; Region: Aspartase; cd01357 360104003442 active sites [active] 360104003443 tetramer interface [polypeptide binding]; other site 360104003444 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 360104003445 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 360104003446 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 360104003447 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 360104003448 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 360104003449 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 360104003450 catalytic triad [active] 360104003451 conserved cis-peptide bond; other site 360104003452 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 360104003453 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 360104003454 dimer interface [polypeptide binding]; other site 360104003455 phosphorylation site [posttranslational modification] 360104003456 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 360104003457 ATP binding site [chemical binding]; other site 360104003458 G-X-G motif; other site 360104003459 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 360104003460 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 360104003461 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 360104003462 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360104003463 catalytic residue [active] 360104003464 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 360104003465 dimer interface [polypeptide binding]; other site 360104003466 substrate binding site [chemical binding]; other site 360104003467 ATP binding site [chemical binding]; other site 360104003468 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 360104003469 thiamine phosphate binding site [chemical binding]; other site 360104003470 active site 360104003471 pyrophosphate binding site [ion binding]; other site 360104003472 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 360104003473 Dynamin family; Region: Dynamin_N; pfam00350 360104003474 G1 box; other site 360104003475 GTP/Mg2+ binding site [chemical binding]; other site 360104003476 G2 box; other site 360104003477 Switch I region; other site 360104003478 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 360104003479 G3 box; other site 360104003480 Switch II region; other site 360104003481 GTP/Mg2+ binding site [chemical binding]; other site 360104003482 G4 box; other site 360104003483 G5 box; other site 360104003484 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 360104003485 Dynamin family; Region: Dynamin_N; pfam00350 360104003486 G1 box; other site 360104003487 GTP/Mg2+ binding site [chemical binding]; other site 360104003488 G2 box; other site 360104003489 Switch I region; other site 360104003490 G3 box; other site 360104003491 Switch II region; other site 360104003492 G4 box; other site 360104003493 G5 box; other site 360104003494 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 360104003495 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 360104003496 dimer interface [polypeptide binding]; other site 360104003497 active site 360104003498 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360104003499 substrate binding site [chemical binding]; other site 360104003500 catalytic residue [active] 360104003501 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 360104003502 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 360104003503 molybdopterin cofactor binding site; other site 360104003504 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 360104003505 molybdopterin cofactor binding site; other site 360104003506 Uncharacterized conserved protein [Function unknown]; Region: COG1359 360104003507 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 360104003508 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 360104003509 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 360104003510 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 360104003511 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 360104003512 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 360104003513 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360104003514 substrate binding pocket [chemical binding]; other site 360104003515 membrane-bound complex binding site; other site 360104003516 hinge residues; other site 360104003517 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 360104003518 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360104003519 substrate binding pocket [chemical binding]; other site 360104003520 membrane-bound complex binding site; other site 360104003521 hinge residues; other site 360104003522 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360104003523 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 360104003524 Walker A/P-loop; other site 360104003525 ATP binding site [chemical binding]; other site 360104003526 Q-loop/lid; other site 360104003527 ABC transporter signature motif; other site 360104003528 Walker B; other site 360104003529 D-loop; other site 360104003530 H-loop/switch region; other site 360104003531 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 360104003532 dimer interface [polypeptide binding]; other site 360104003533 conserved gate region; other site 360104003534 putative PBP binding loops; other site 360104003535 ABC-ATPase subunit interface; other site 360104003536 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 360104003537 Na binding site [ion binding]; other site 360104003538 UGMP family protein; Validated; Region: PRK09604 360104003539 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 360104003540 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 360104003541 active site 360104003542 Zn binding site [ion binding]; other site 360104003543 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 360104003544 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 360104003545 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 360104003546 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 360104003547 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 360104003548 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 360104003549 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 360104003550 Restriction endonuclease; Region: Mrr_cat; pfam04471 360104003551 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 360104003552 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 360104003553 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 360104003554 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 360104003555 L-aspartate oxidase; Provisional; Region: PRK06175 360104003556 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 360104003557 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 360104003558 proximal heme binding site [chemical binding]; other site 360104003559 dimer interface [polypeptide binding]; other site 360104003560 Iron-sulfur protein interface; other site 360104003561 distal heme binding site [chemical binding]; other site 360104003562 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 360104003563 Uncharacterized conserved protein [Function unknown]; Region: COG1739 360104003564 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 360104003565 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 360104003566 active site 360104003567 tetramer interface; other site 360104003568 glucose-6-phosphate isomerase; Provisional; Region: PRK03868 360104003569 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 360104003570 dimer interface [polypeptide binding]; other site 360104003571 active site 360104003572 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 360104003573 dimer interface [polypeptide binding]; other site 360104003574 active site 360104003575 Domain of unknown function (DUF1287); Region: DUF1287; pfam06940 360104003576 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 360104003577 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360104003578 Walker A/P-loop; other site 360104003579 ATP binding site [chemical binding]; other site 360104003580 Q-loop/lid; other site 360104003581 ABC transporter signature motif; other site 360104003582 Walker B; other site 360104003583 D-loop; other site 360104003584 H-loop/switch region; other site 360104003585 ABC transporter; Region: ABC_tran_2; pfam12848 360104003586 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 360104003587 Domain of unknown function (DUF4272); Region: DUF4272; pfam14094 360104003588 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 360104003589 Predicted dehydrogenase [General function prediction only]; Region: COG0579 360104003590 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 360104003591 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 360104003592 N-terminal plug; other site 360104003593 ligand-binding site [chemical binding]; other site 360104003594 2-isopropylmalate synthase; Validated; Region: PRK00915 360104003595 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 360104003596 active site 360104003597 catalytic residues [active] 360104003598 metal binding site [ion binding]; metal-binding site 360104003599 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 360104003600 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 360104003601 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 360104003602 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 360104003603 FtsH Extracellular; Region: FtsH_ext; pfam06480 360104003604 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 360104003605 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 360104003606 Walker A motif; other site 360104003607 ATP binding site [chemical binding]; other site 360104003608 Walker B motif; other site 360104003609 arginine finger; other site 360104003610 Peptidase family M41; Region: Peptidase_M41; pfam01434 360104003611 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 360104003612 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 360104003613 S-adenosylmethionine binding site [chemical binding]; other site 360104003614 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 360104003615 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 360104003616 active site 360104003617 phosphorylation site [posttranslational modification] 360104003618 intermolecular recognition site; other site 360104003619 dimerization interface [polypeptide binding]; other site 360104003620 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 360104003621 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 360104003622 catalytic residues [active] 360104003623 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 360104003624 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 360104003625 putative active site [active] 360104003626 oxyanion strand; other site 360104003627 catalytic triad [active] 360104003628 Cache domain; Region: Cache_1; pfam02743 360104003629 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 360104003630 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 360104003631 NAD(P) binding site [chemical binding]; other site 360104003632 homodimer interface [polypeptide binding]; other site 360104003633 substrate binding site [chemical binding]; other site 360104003634 active site 360104003635 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 360104003636 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 360104003637 inhibitor-cofactor binding pocket; inhibition site 360104003638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104003639 catalytic residue [active] 360104003640 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 360104003641 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 360104003642 putative trimer interface [polypeptide binding]; other site 360104003643 putative CoA binding site [chemical binding]; other site 360104003644 Bacterial sugar transferase; Region: Bac_transf; pfam02397 360104003645 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 360104003646 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003647 putative ADP-binding pocket [chemical binding]; other site 360104003648 Oligosaccharyl transferase STT3 subunit; Region: STT3; pfam02516 360104003649 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 360104003650 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003651 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 360104003652 putative ADP-binding pocket [chemical binding]; other site 360104003653 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003654 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 360104003655 putative ADP-binding pocket [chemical binding]; other site 360104003656 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003657 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 360104003658 putative ADP-binding pocket [chemical binding]; other site 360104003659 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 360104003660 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 360104003661 active site 360104003662 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 360104003663 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cd12082 360104003664 Uncharacterized membrane protein, required for N-linked glycosylation [General function prediction only]; Region: COG1287 360104003665 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 360104003666 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 360104003667 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 360104003668 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 360104003669 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 360104003670 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 360104003671 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 360104003672 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 360104003673 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 360104003674 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 360104003675 NAD binding site [chemical binding]; other site 360104003676 homodimer interface [polypeptide binding]; other site 360104003677 active site 360104003678 substrate binding site [chemical binding]; other site 360104003679 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 360104003680 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 360104003681 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 360104003682 DNA binding site [nucleotide binding] 360104003683 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 360104003684 active site 360104003685 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 360104003686 DNA binding site [nucleotide binding] 360104003687 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 360104003688 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 360104003689 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 360104003690 putative NAD(P) binding site [chemical binding]; other site 360104003691 active site 360104003692 putative substrate binding site [chemical binding]; other site 360104003693 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 360104003694 active site 360104003695 catalytic site [active] 360104003696 substrate binding site [chemical binding]; other site 360104003697 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 360104003698 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 360104003699 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 360104003700 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 360104003701 putative active site [active] 360104003702 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 360104003703 putative acyl-acceptor binding pocket; other site 360104003704 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 360104003705 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 360104003706 putative metal binding site; other site 360104003707 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 360104003708 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 360104003709 putative active site [active] 360104003710 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003711 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 360104003712 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 360104003713 putative active site [active] 360104003714 putative metal binding site [ion binding]; other site 360104003715 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 360104003716 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 360104003717 putative active site [active] 360104003718 putative metal binding site [ion binding]; other site 360104003719 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003720 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 360104003721 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003722 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 360104003723 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 360104003724 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 360104003725 putative active site [active] 360104003726 DJ-1 family protein; Region: not_thiJ; TIGR01383 360104003727 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 360104003728 conserved cys residue [active] 360104003729 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 360104003730 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360104003731 active site 360104003732 HIGH motif; other site 360104003733 nucleotide binding site [chemical binding]; other site 360104003734 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 360104003735 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 360104003736 active site 360104003737 PHP Thumb interface [polypeptide binding]; other site 360104003738 metal binding site [ion binding]; metal-binding site 360104003739 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 360104003740 generic binding surface II; other site 360104003741 generic binding surface I; other site 360104003742 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 360104003743 Ligand Binding Site [chemical binding]; other site 360104003744 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 360104003745 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 360104003746 oligomer interface [polypeptide binding]; other site 360104003747 RNA binding site [nucleotide binding]; other site 360104003748 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 360104003749 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 360104003750 RNase E interface [polypeptide binding]; other site 360104003751 trimer interface [polypeptide binding]; other site 360104003752 active site 360104003753 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 360104003754 putative nucleic acid binding region [nucleotide binding]; other site 360104003755 G-X-X-G motif; other site 360104003756 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 360104003757 RNA binding site [nucleotide binding]; other site 360104003758 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360104003759 active site 360104003760 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 360104003761 Organic solvent tolerance protein; Region: OstA_C; pfam04453 360104003762 RDD family; Region: RDD; pfam06271 360104003763 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 360104003764 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 360104003765 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 360104003766 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 360104003767 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 360104003768 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 360104003769 active site 360104003770 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 360104003771 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 360104003772 putative substrate translocation pore; other site 360104003773 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 360104003774 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 360104003775 Uncharacterized conserved protein [Function unknown]; Region: COG4121 360104003776 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 360104003777 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 360104003778 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 360104003779 active site 360104003780 metal binding site [ion binding]; metal-binding site 360104003781 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 360104003782 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 360104003783 FMN binding site [chemical binding]; other site 360104003784 substrate binding site [chemical binding]; other site 360104003785 putative catalytic residue [active] 360104003786 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 360104003787 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360104003788 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 360104003789 active site 360104003790 HIGH motif; other site 360104003791 dimer interface [polypeptide binding]; other site 360104003792 KMSKS motif; other site 360104003793 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 360104003794 RNA binding surface [nucleotide binding]; other site 360104003795 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 360104003796 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 360104003797 Zn2+ binding site [ion binding]; other site 360104003798 Mg2+ binding site [ion binding]; other site 360104003799 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 360104003800 synthetase active site [active] 360104003801 NTP binding site [chemical binding]; other site 360104003802 metal binding site [ion binding]; metal-binding site 360104003803 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 360104003804 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 360104003805 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 360104003806 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 360104003807 putative nucleotide binding site [chemical binding]; other site 360104003808 uridine monophosphate binding site [chemical binding]; other site 360104003809 homohexameric interface [polypeptide binding]; other site 360104003810 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 360104003811 Peptidase family M23; Region: Peptidase_M23; pfam01551 360104003812 FtsX-like permease family; Region: FtsX; pfam02687 360104003813 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360104003814 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360104003815 Walker A/P-loop; other site 360104003816 ATP binding site [chemical binding]; other site 360104003817 Q-loop/lid; other site 360104003818 ABC transporter signature motif; other site 360104003819 Walker B; other site 360104003820 D-loop; other site 360104003821 H-loop/switch region; other site 360104003822 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 360104003823 S-adenosylmethionine binding site [chemical binding]; other site 360104003824 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 360104003825 Fibronectin type 3 domain-containing protein [General function prediction only]; Region: COG3401 360104003826 Interdomain contacts; other site 360104003827 Cytokine receptor motif; other site 360104003828 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 360104003829 Interdomain contacts; other site 360104003830 Cytokine receptor motif; other site 360104003831 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 360104003832 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 360104003833 RNA binding surface [nucleotide binding]; other site 360104003834 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 360104003835 active site 360104003836 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 360104003837 Protein of unknown function DUF2625; Region: DUF2625; pfam10946 360104003838 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08415 360104003839 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 360104003840 NAD binding site [chemical binding]; other site 360104003841 homotetramer interface [polypeptide binding]; other site 360104003842 homodimer interface [polypeptide binding]; other site 360104003843 substrate binding site [chemical binding]; other site 360104003844 active site 360104003845 triosephosphate isomerase; Provisional; Region: PRK14565 360104003846 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 360104003847 substrate binding site [chemical binding]; other site 360104003848 dimer interface [polypeptide binding]; other site 360104003849 catalytic triad [active] 360104003850 Phosphoglycerate kinase; Region: PGK; pfam00162 360104003851 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 360104003852 substrate binding site [chemical binding]; other site 360104003853 hinge regions; other site 360104003854 ADP binding site [chemical binding]; other site 360104003855 catalytic site [active] 360104003856 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 360104003857 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 360104003858 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 360104003859 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 360104003860 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 360104003861 active site 360104003862 (T/H)XGH motif; other site 360104003863 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 360104003864 Predicted membrane protein [Function unknown]; Region: COG2855 360104003865 Bacterial sugar transferase; Region: Bac_transf; pfam02397 360104003866 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 360104003867 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003868 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 360104003869 active site 360104003870 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 360104003871 homodimer interface [polypeptide binding]; other site 360104003872 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 360104003873 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003874 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003875 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 360104003876 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 360104003877 dimer interface [polypeptide binding]; other site 360104003878 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 360104003879 active site 360104003880 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 360104003881 Ligand Binding Site [chemical binding]; other site 360104003882 Molecular Tunnel; other site 360104003883 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 360104003884 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 360104003885 extended (e) SDRs; Region: SDR_e; cd08946 360104003886 NAD(P) binding site [chemical binding]; other site 360104003887 active site 360104003888 substrate binding site [chemical binding]; other site 360104003889 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 360104003890 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 360104003891 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003892 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 360104003893 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 360104003894 active site 360104003895 cosubstrate binding site; other site 360104003896 substrate binding site [chemical binding]; other site 360104003897 catalytic site [active] 360104003898 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 360104003899 active site 360104003900 hexamer interface [polypeptide binding]; other site 360104003901 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 360104003902 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 360104003903 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360104003904 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 360104003905 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 360104003906 active site 360104003907 metal binding site [ion binding]; metal-binding site 360104003908 homotetramer interface [polypeptide binding]; other site 360104003909 Methyltransferase domain; Region: Methyltransf_23; pfam13489 360104003910 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 360104003911 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 360104003912 active site 360104003913 dimer interface [polypeptide binding]; other site 360104003914 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 360104003915 Ligand Binding Site [chemical binding]; other site 360104003916 Molecular Tunnel; other site 360104003917 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 360104003918 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 360104003919 inhibitor-cofactor binding pocket; inhibition site 360104003920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104003921 catalytic residue [active] 360104003922 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 360104003923 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104003924 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 360104003925 NAD(P) binding site [chemical binding]; other site 360104003926 active site 360104003927 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 360104003928 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 360104003929 inhibitor-cofactor binding pocket; inhibition site 360104003930 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104003931 catalytic residue [active] 360104003932 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 360104003933 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 360104003934 putative trimer interface [polypeptide binding]; other site 360104003935 putative active site [active] 360104003936 putative substrate binding site [chemical binding]; other site 360104003937 putative CoA binding site [chemical binding]; other site 360104003938 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 360104003939 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 360104003940 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 360104003941 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 360104003942 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 360104003943 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 360104003944 active site 360104003945 HIGH motif; other site 360104003946 KMSK motif region; other site 360104003947 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 360104003948 tRNA binding surface [nucleotide binding]; other site 360104003949 anticodon binding site; other site 360104003950 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 360104003951 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 360104003952 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 360104003953 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 360104003954 catalytic site [active] 360104003955 G-X2-G-X-G-K; other site 360104003956 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 360104003957 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360104003958 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360104003959 Walker A/P-loop; other site 360104003960 ATP binding site [chemical binding]; other site 360104003961 Q-loop/lid; other site 360104003962 ABC transporter signature motif; other site 360104003963 Walker B; other site 360104003964 D-loop; other site 360104003965 H-loop/switch region; other site 360104003966 elongation factor Ts; Provisional; Region: tsf; PRK09377 360104003967 UBA/TS-N domain; Region: UBA; pfam00627 360104003968 Elongation factor TS; Region: EF_TS; pfam00889 360104003969 Elongation factor TS; Region: EF_TS; pfam00889 360104003970 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 360104003971 rRNA interaction site [nucleotide binding]; other site 360104003972 S8 interaction site; other site 360104003973 putative laminin-1 binding site; other site 360104003974 isoaspartyl dipeptidase; Provisional; Region: PRK10657 360104003975 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 360104003976 active site 360104003977 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 360104003978 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 360104003979 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 360104003980 Lumazine binding domain; Region: Lum_binding; pfam00677 360104003981 Lumazine binding domain; Region: Lum_binding; pfam00677 360104003982 Domain of unknown function (DUF1963); Region: DUF1963; pfam09234 360104003983 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 360104003984 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 360104003985 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 360104003986 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 360104003987 dimer interface [polypeptide binding]; other site 360104003988 active site 360104003989 acyl carrier protein; Provisional; Region: acpP; PRK00982 360104003990 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 360104003991 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104003992 NAD(P) binding site [chemical binding]; other site 360104003993 active site 360104003994 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 360104003995 phosphoglyceromutase; Provisional; Region: PRK05434 360104003996 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 360104003997 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360104003998 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 360104003999 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 360104004000 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 360104004001 active site 360104004002 DNA binding site [nucleotide binding] 360104004003 Int/Topo IB signature motif; other site 360104004004 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 360104004005 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 360104004006 cofactor binding site; other site 360104004007 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 360104004008 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360104004009 transcriptional repressor DicA; Reviewed; Region: PRK09706 360104004010 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 360104004011 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 360104004012 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 360104004013 active site 360104004014 DNA binding site [nucleotide binding] 360104004015 Int/Topo IB signature motif; other site 360104004016 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 360104004017 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 360104004018 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360104004019 Zonular occludens toxin (Zot); Region: Zot; cl17485 360104004020 transcriptional repressor DicA; Reviewed; Region: PRK09706 360104004021 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 360104004022 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 360104004023 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 360104004024 active site 360104004025 DNA binding site [nucleotide binding] 360104004026 Int/Topo IB signature motif; other site 360104004027 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 360104004028 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 360104004029 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360104004030 Zonular occludens toxin (Zot); Region: Zot; cl17485 360104004031 C terminus; Region: Baculo_PEP_C; pfam04513 360104004032 transcriptional repressor DicA; Reviewed; Region: PRK09706 360104004033 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 360104004034 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 360104004035 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 360104004036 active site 360104004037 DNA binding site [nucleotide binding] 360104004038 Int/Topo IB signature motif; other site 360104004039 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 360104004040 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 360104004041 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360104004042 Zonular occludens toxin (Zot); Region: Zot; cl17485 360104004043 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 360104004044 sequence-specific DNA binding site [nucleotide binding]; other site 360104004045 salt bridge; other site 360104004046 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 360104004047 molybdopterin cofactor binding site; other site 360104004048 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 360104004049 molybdopterin cofactor binding site; other site 360104004050 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 360104004051 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 360104004052 dimer interface [polypeptide binding]; other site 360104004053 conserved gate region; other site 360104004054 putative PBP binding loops; other site 360104004055 ABC-ATPase subunit interface; other site 360104004056 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 360104004057 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360104004058 Walker A/P-loop; other site 360104004059 ATP binding site [chemical binding]; other site 360104004060 Q-loop/lid; other site 360104004061 ABC transporter signature motif; other site 360104004062 Walker B; other site 360104004063 D-loop; other site 360104004064 H-loop/switch region; other site 360104004065 TOBE domain; Region: TOBE_2; pfam08402 360104004066 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 360104004067 molybdopterin cofactor binding site; other site 360104004068 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 360104004069 molybdopterin cofactor binding site; other site 360104004070 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 360104004071 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 360104004072 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 360104004073 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 360104004074 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 360104004075 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360104004076 catalytic residue [active] 360104004077 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 360104004078 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 360104004079 pantothenate kinase; Reviewed; Region: PRK13333 360104004080 PQQ-like domain; Region: PQQ_2; pfam13360 360104004081 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 360104004082 Colicin V production protein; Region: Colicin_V; pfam02674 360104004083 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 360104004084 metal binding site 2 [ion binding]; metal-binding site 360104004085 putative DNA binding helix; other site 360104004086 metal binding site 1 [ion binding]; metal-binding site 360104004087 dimer interface [polypeptide binding]; other site 360104004088 structural Zn2+ binding site [ion binding]; other site 360104004089 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 360104004090 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 360104004091 dimer interface [polypeptide binding]; other site 360104004092 putative anticodon binding site; other site 360104004093 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 360104004094 motif 1; other site 360104004095 active site 360104004096 motif 2; other site 360104004097 motif 3; other site 360104004098 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 360104004099 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 360104004100 dimer interface [polypeptide binding]; other site 360104004101 active site 360104004102 glycine-pyridoxal phosphate binding site [chemical binding]; other site 360104004103 folate binding site [chemical binding]; other site 360104004104 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; cd00525 360104004105 nucleotide binding site [chemical binding]; other site 360104004106 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 360104004107 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 360104004108 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 360104004109 shikimate binding site; other site 360104004110 NAD(P) binding site [chemical binding]; other site 360104004111 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 360104004112 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 360104004113 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360104004114 Walker A/P-loop; other site 360104004115 ATP binding site [chemical binding]; other site 360104004116 Q-loop/lid; other site 360104004117 ABC transporter signature motif; other site 360104004118 Walker B; other site 360104004119 D-loop; other site 360104004120 H-loop/switch region; other site 360104004121 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 360104004122 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 360104004123 dimer interface [polypeptide binding]; other site 360104004124 conserved gate region; other site 360104004125 putative PBP binding loops; other site 360104004126 ABC-ATPase subunit interface; other site 360104004127 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 360104004128 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 360104004129 ACS interaction site; other site 360104004130 CODH interaction site; other site 360104004131 metal cluster binding site [ion binding]; other site 360104004132 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 360104004133 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it, thus inhibiting its potentially lethal RNase activity inside the...; Region: Barstar_like; cd00489 360104004134 RNAase interaction site [polypeptide binding]; other site 360104004135 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 360104004136 active site 360104004137 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360104004138 active site 360104004139 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 360104004140 Malic enzyme, N-terminal domain; Region: malic; pfam00390 360104004141 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 360104004142 putative NAD(P) binding site [chemical binding]; other site 360104004143 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 360104004144 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360104004145 active site 360104004146 HIGH motif; other site 360104004147 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360104004148 active site 360104004149 KMSKS motif; other site 360104004150 SurA N-terminal domain; Region: SurA_N; pfam09312 360104004151 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 360104004152 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 360104004153 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 360104004154 metal binding site [ion binding]; metal-binding site 360104004155 dimer interface [polypeptide binding]; other site 360104004156 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360104004157 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104004158 metal binding site [ion binding]; metal-binding site 360104004159 active site 360104004160 I-site; other site 360104004161 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 360104004162 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 360104004163 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 360104004164 Walker A/P-loop; other site 360104004165 ATP binding site [chemical binding]; other site 360104004166 Q-loop/lid; other site 360104004167 ABC transporter signature motif; other site 360104004168 Walker B; other site 360104004169 D-loop; other site 360104004170 H-loop/switch region; other site 360104004171 Smr domain; Region: Smr; pfam01713 360104004172 Transposase; Region: DEDD_Tnp_IS110; pfam01548 360104004173 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 360104004174 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 360104004175 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 360104004176 Protein of unknown function (DUF419); Region: DUF419; pfam04237 360104004177 L-aspartate oxidase; Provisional; Region: PRK06175 360104004178 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 360104004179 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 360104004180 Exonuclease VII small subunit; Region: Exonuc_VII_S; pfam02609 360104004181 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 360104004182 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 360104004183 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 360104004184 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 360104004185 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 360104004186 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 360104004187 active site 360104004188 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 360104004189 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360104004190 active site 360104004191 HIGH motif; other site 360104004192 nucleotide binding site [chemical binding]; other site 360104004193 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 360104004194 active site 360104004195 KMSKS motif; other site 360104004196 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 360104004197 tRNA binding surface [nucleotide binding]; other site 360104004198 anticodon binding site; other site 360104004199 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 360104004200 Competence-damaged protein; Region: CinA; pfam02464 360104004201 Pectate lyase; Region: Pec_lyase_C; cl01593 360104004202 Pectate lyase; Region: Pec_lyase_C; cl01593 360104004203 Predicted exporter [General function prediction only]; Region: COG4258 360104004204 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 360104004205 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 360104004206 active site 360104004207 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 360104004208 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 360104004209 Ligand binding site; other site 360104004210 Putative Catalytic site; other site 360104004211 DXD motif; other site 360104004212 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 360104004213 putative acyl-acceptor binding pocket; other site 360104004214 AMP-binding enzyme; Region: AMP-binding; pfam00501 360104004215 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 360104004216 acyl-activating enzyme (AAE) consensus motif; other site 360104004217 active site 360104004218 AMP binding site [chemical binding]; other site 360104004219 CoA binding site [chemical binding]; other site 360104004220 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 360104004221 active site 2 [active] 360104004222 active site 1 [active] 360104004223 Predicted membrane protein [Function unknown]; Region: COG4648 360104004224 acyl carrier protein; Provisional; Region: PRK05350 360104004225 Phosphopantetheine attachment site; Region: PP-binding; cl09936 360104004226 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 360104004227 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 360104004228 putative acyl-acceptor binding pocket; other site 360104004229 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 360104004230 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 360104004231 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 360104004232 dimer interface [polypeptide binding]; other site 360104004233 active site 360104004234 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 360104004235 active site 2 [active] 360104004236 active site 1 [active] 360104004237 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 360104004238 dimer interface [polypeptide binding]; other site 360104004239 active site 360104004240 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 360104004241 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 360104004242 Repair protein; Region: Repair_PSII; pfam04536 360104004243 LemA family; Region: LemA; pfam04011 360104004244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3787; cl17897 360104004245 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 360104004246 dUTPase; Region: dUTPase_2; pfam08761 360104004247 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 360104004248 active site 360104004249 homodimer interface [polypeptide binding]; other site 360104004250 metal binding site [ion binding]; metal-binding site 360104004251 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360104004252 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104004253 metal binding site [ion binding]; metal-binding site 360104004254 active site 360104004255 I-site; other site 360104004256 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 360104004257 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104004258 metal binding site [ion binding]; metal-binding site 360104004259 active site 360104004260 I-site; other site 360104004261 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 360104004262 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 360104004263 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 360104004264 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 360104004265 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 360104004266 MoaE homodimer interface [polypeptide binding]; other site 360104004267 MoaD interaction [polypeptide binding]; other site 360104004268 active site residues [active] 360104004269 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 360104004270 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 360104004271 dimer interface [polypeptide binding]; other site 360104004272 active site 360104004273 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360104004274 catalytic residues [active] 360104004275 substrate binding site [chemical binding]; other site 360104004276 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 360104004277 DJ-1 family protein; Region: not_thiJ; TIGR01383 360104004278 conserved cys residue [active] 360104004279 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 360104004280 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 360104004281 SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response...; Region: SirA_like_N; cd03421 360104004282 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 360104004283 CPxP motif; other site 360104004284 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 360104004285 dimerization interface [polypeptide binding]; other site 360104004286 ATP binding site [chemical binding]; other site 360104004287 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 360104004288 dimer interface [polypeptide binding]; other site 360104004289 FMN binding site [chemical binding]; other site 360104004290 PAS domain S-box; Region: sensory_box; TIGR00229 360104004291 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 360104004292 putative active site [active] 360104004293 heme pocket [chemical binding]; other site 360104004294 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360104004295 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104004296 metal binding site [ion binding]; metal-binding site 360104004297 active site 360104004298 I-site; other site 360104004299 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 360104004300 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12293 360104004301 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 360104004302 motif 1; other site 360104004303 dimer interface [polypeptide binding]; other site 360104004304 active site 360104004305 motif 2; other site 360104004306 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 360104004307 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 360104004308 GDP-binding site [chemical binding]; other site 360104004309 ACT binding site; other site 360104004310 IMP binding site; other site 360104004311 Flagellar FliJ protein; Region: FliJ; pfam02050 360104004312 Uncharacterized conserved protein [Function unknown]; Region: COG3334 360104004313 flavoprotein, HI0933 family; Region: TIGR00275 360104004314 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 360104004315 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360104004316 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 360104004317 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 360104004318 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360104004319 ATP-grasp domain; Region: ATP-grasp_4; cl17255 360104004320 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 360104004321 IMP binding site; other site 360104004322 dimer interface [polypeptide binding]; other site 360104004323 interdomain contacts; other site 360104004324 partial ornithine binding site; other site 360104004325 rod shape-determining protein MreC; Provisional; Region: PRK13922 360104004326 rod shape-determining protein MreC; Region: MreC; pfam04085 360104004327 rod shape-determining protein MreB; Provisional; Region: PRK13927 360104004328 MreB and similar proteins; Region: MreB_like; cd10225 360104004329 nucleotide binding site [chemical binding]; other site 360104004330 Mg binding site [ion binding]; other site 360104004331 putative protofilament interaction site [polypeptide binding]; other site 360104004332 RodZ interaction site [polypeptide binding]; other site 360104004333 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 360104004334 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 360104004335 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 360104004336 Walker A motif; other site 360104004337 ATP binding site [chemical binding]; other site 360104004338 Walker B motif; other site 360104004339 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 360104004340 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 360104004341 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group; Region: Alpha_ANH_like; cd01986 360104004342 Ligand Binding Site [chemical binding]; other site 360104004343 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 360104004344 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360104004345 Walker A/P-loop; other site 360104004346 ATP binding site [chemical binding]; other site 360104004347 Q-loop/lid; other site 360104004348 ABC transporter signature motif; other site 360104004349 Walker B; other site 360104004350 D-loop; other site 360104004351 H-loop/switch region; other site 360104004352 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360104004353 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 360104004354 Walker A/P-loop; other site 360104004355 ATP binding site [chemical binding]; other site 360104004356 Q-loop/lid; other site 360104004357 ABC transporter signature motif; other site 360104004358 Walker B; other site 360104004359 D-loop; other site 360104004360 H-loop/switch region; other site 360104004361 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 360104004362 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 360104004363 dimer interface [polypeptide binding]; other site 360104004364 conserved gate region; other site 360104004365 putative PBP binding loops; other site 360104004366 ABC-ATPase subunit interface; other site 360104004367 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 360104004368 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 360104004369 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_19; cd08518 360104004370 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 360104004371 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 360104004372 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 360104004373 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 360104004374 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 360104004375 active site 1 [active] 360104004376 dimer interface [polypeptide binding]; other site 360104004377 hexamer interface [polypeptide binding]; other site 360104004378 active site 2 [active] 360104004379 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 360104004380 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 360104004381 catalytic triad [active] 360104004382 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 360104004383 Sulfatase; Region: Sulfatase; pfam00884 360104004384 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 360104004385 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 360104004386 catalytic residues [active] 360104004387 hinge region; other site 360104004388 alpha helical domain; other site 360104004389 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 360104004390 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 360104004391 homodimer interface [polypeptide binding]; other site 360104004392 substrate-cofactor binding pocket; other site 360104004393 catalytic residue [active] 360104004394 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 360104004395 SPFH domain / Band 7 family; Region: Band_7; pfam01145 360104004396 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 360104004397 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 360104004398 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 360104004399 metal binding site [ion binding]; metal-binding site 360104004400 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 360104004401 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 360104004402 biotin carboxylase; Validated; Region: PRK08462 360104004403 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360104004404 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 360104004405 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 360104004406 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 360104004407 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 360104004408 carboxyltransferase (CT) interaction site; other site 360104004409 biotinylation site [posttranslational modification]; other site 360104004410 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 360104004411 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 360104004412 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 360104004413 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 360104004414 Phosphoribosyltransferase (PRTase) type II; This family contains two enzymes that play an important role in NAD production by either allowing quinolinic acid (QA) , quinolinate phosphoribosyl transferase (QAPRTase), or nicotinic acid (NA), nicotinate...; Region: PRTase_typeII; cl17275 360104004415 active site 360104004416 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 360104004417 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 360104004418 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 360104004419 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 360104004420 recombinase A; Provisional; Region: recA; PRK09354 360104004421 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 360104004422 hexamer interface [polypeptide binding]; other site 360104004423 Walker A motif; other site 360104004424 ATP binding site [chemical binding]; other site 360104004425 Walker B motif; other site 360104004426 enolase; Provisional; Region: eno; PRK00077 360104004427 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 360104004428 dimer interface [polypeptide binding]; other site 360104004429 metal binding site [ion binding]; metal-binding site 360104004430 substrate binding pocket [chemical binding]; other site 360104004431 AMIN domain; Region: AMIN; pfam11741 360104004432 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 360104004433 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 360104004434 active site 360104004435 DNA binding site [nucleotide binding] 360104004436 Int/Topo IB signature motif; other site 360104004437 tetrathionate reductase subunit A; Provisional; Region: PRK14991 360104004438 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 360104004439 putative [Fe4-S4] binding site [ion binding]; other site 360104004440 putative molybdopterin cofactor binding site [chemical binding]; other site 360104004441 This CD contains the molybdopterin_binding C-terminal (MopB_CT) region of tetrathionate reductase, subunit A, (TtrA); respiratory arsenate As(V) reductase, catalytic subunit (ArrA); and other related proteins; Region: MopB_CT_Tetrathionate_Arsenate-R; cd02780 360104004442 putative molybdopterin cofactor binding site; other site 360104004443 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 360104004444 4Fe-4S binding domain; Region: Fer4; pfam00037 360104004445 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 360104004446 dimerization interface [polypeptide binding]; other site 360104004447 substrate binding site [chemical binding]; other site 360104004448 active site 360104004449 calcium binding site [ion binding]; other site 360104004450 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 360104004451 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 360104004452 GTP binding site; other site 360104004453 Sugar efflux transporter for intercellular exchange; Region: MtN3_slv; pfam03083 360104004454 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 360104004455 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 360104004456 substrate binding site [chemical binding]; other site 360104004457 ligand binding site [chemical binding]; other site 360104004458 Cache domain; Region: Cache_1; pfam02743 360104004459 MutS domain III; Region: MutS_III; cl17822 360104004460 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360104004461 dimer interface [polypeptide binding]; other site 360104004462 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 360104004463 putative CheW interface [polypeptide binding]; other site 360104004464 Domain of unknown function (DUF814); Region: DUF814; pfam05670 360104004465 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 360104004466 BON domain; Region: BON; pfam04972 360104004467 BON domain; Region: BON; cl02771 360104004468 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 360104004469 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 360104004470 VacJ like lipoprotein; Region: VacJ; cl01073 360104004471 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 360104004472 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 360104004473 TOBE domain; Region: TOBE; cl01440 360104004474 molybdenum-pterin binding domain; Region: Mop; TIGR00638 360104004475 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 360104004476 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 360104004477 TOBE domain; Region: TOBE; pfam03459 360104004478 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 360104004479 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 360104004480 Walker A/P-loop; other site 360104004481 ATP binding site [chemical binding]; other site 360104004482 Q-loop/lid; other site 360104004483 ABC transporter signature motif; other site 360104004484 Walker B; other site 360104004485 D-loop; other site 360104004486 H-loop/switch region; other site 360104004487 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 360104004488 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 360104004489 dimer interface [polypeptide binding]; other site 360104004490 conserved gate region; other site 360104004491 putative PBP binding loops; other site 360104004492 ABC-ATPase subunit interface; other site 360104004493 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 360104004494 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 360104004495 S-adenosylmethionine binding site [chemical binding]; other site 360104004496 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 360104004497 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 360104004498 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 360104004499 active site 360104004500 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 360104004501 dimer interface [polypeptide binding]; other site 360104004502 Citrate synthase; Region: Citrate_synt; pfam00285 360104004503 active site 360104004504 citrylCoA binding site [chemical binding]; other site 360104004505 NADH binding [chemical binding]; other site 360104004506 cationic pore residues; other site 360104004507 oxalacetate/citrate binding site [chemical binding]; other site 360104004508 coenzyme A binding site [chemical binding]; other site 360104004509 catalytic triad [active] 360104004510 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 360104004511 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 360104004512 CrcB-like protein; Region: CRCB; cl09114 360104004513 biotin synthase; Provisional; Region: PRK08508 360104004514 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 360104004515 FeS/SAM binding site; other site 360104004516 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 360104004517 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 360104004518 DNA topoisomerase I; Validated; Region: PRK05582 360104004519 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 360104004520 active site 360104004521 interdomain interaction site; other site 360104004522 putative metal-binding site [ion binding]; other site 360104004523 nucleotide binding site [chemical binding]; other site 360104004524 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 360104004525 domain I; other site 360104004526 DNA binding groove [nucleotide binding] 360104004527 phosphate binding site [ion binding]; other site 360104004528 domain II; other site 360104004529 domain III; other site 360104004530 nucleotide binding site [chemical binding]; other site 360104004531 catalytic site [active] 360104004532 domain IV; other site 360104004533 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 360104004534 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 360104004535 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 360104004536 flagellin B; Provisional; Region: PRK13588 360104004537 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 360104004538 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 360104004539 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 360104004540 flagellin modification protein A; Provisional; Region: PRK09186 360104004541 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104004542 NAD(P) binding site [chemical binding]; other site 360104004543 active site 360104004544 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 360104004545 ligand binding site; other site 360104004546 tetramer interface; other site 360104004547 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 360104004548 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 360104004549 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 360104004550 FOG: CBS domain [General function prediction only]; Region: COG0517 360104004551 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 360104004552 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 360104004553 Substrate binding site; other site 360104004554 metal-binding site 360104004555 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 360104004556 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 360104004557 active site 360104004558 homodimer interface [polypeptide binding]; other site 360104004559 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 360104004560 NeuB family; Region: NeuB; pfam03102 360104004561 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 360104004562 NeuB binding interface [polypeptide binding]; other site 360104004563 putative substrate binding site [chemical binding]; other site 360104004564 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 360104004565 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 360104004566 putative trimer interface [polypeptide binding]; other site 360104004567 putative CoA binding site [chemical binding]; other site 360104004568 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 360104004569 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 360104004570 inhibitor-cofactor binding pocket; inhibition site 360104004571 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104004572 catalytic residue [active] 360104004573 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 360104004574 trimer interface [polypeptide binding]; other site 360104004575 active site 360104004576 Protein of unknown function (DUF3737); Region: DUF3737; pfam12541 360104004577 YcxB-like protein; Region: YcxB; pfam14317 360104004578 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 360104004579 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 360104004580 molybdopterin cofactor binding site; other site 360104004581 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 360104004582 molybdopterin cofactor binding site; other site 360104004583 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 360104004584 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 360104004585 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 360104004586 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 360104004587 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 360104004588 active site 360104004589 catalytic nucleophile [active] 360104004590 dimer interface [polypeptide binding]; other site 360104004591 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004592 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 360104004593 homotrimer interaction site [polypeptide binding]; other site 360104004594 putative active site [active] 360104004595 Fumarase C-terminus; Region: Fumerase_C; cl00795 360104004596 fumarate hydratase; Provisional; Region: PRK06246 360104004597 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 360104004598 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 360104004599 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 360104004600 Domain of unknown function DUF21; Region: DUF21; pfam01595 360104004601 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 360104004602 Transporter associated domain; Region: CorC_HlyC; smart01091 360104004603 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 360104004604 Na2 binding site [ion binding]; other site 360104004605 putative substrate binding site 1 [chemical binding]; other site 360104004606 Na binding site 1 [ion binding]; other site 360104004607 putative substrate binding site 2 [chemical binding]; other site 360104004608 Predicted metal-binding protein [General function prediction only]; Region: COG3019 360104004609 putative transporter; Reviewed; Region: PRK12369 360104004610 Peptidase family M48; Region: Peptidase_M48; pfam01435 360104004611 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 360104004612 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360104004613 Coenzyme A binding pocket [chemical binding]; other site 360104004614 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 360104004615 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 360104004616 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 360104004617 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360104004618 Sel1 repeat; Region: Sel1; cl02723 360104004619 Sel1-like repeats; Region: SEL1; smart00671 360104004620 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 360104004621 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 360104004622 Walker A/P-loop; other site 360104004623 ATP binding site [chemical binding]; other site 360104004624 Q-loop/lid; other site 360104004625 ABC transporter signature motif; other site 360104004626 Walker B; other site 360104004627 D-loop; other site 360104004628 H-loop/switch region; other site 360104004629 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 360104004630 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360104004631 Cytochrome c; Region: Cytochrom_C; cl11414 360104004632 Cytochrome c; Region: Cytochrom_C; cl11414 360104004633 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 360104004634 Pectate lyase; Region: Pec_lyase_C; cl01593 360104004635 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 360104004636 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 360104004637 Cytochrome c; Region: Cytochrom_C; pfam00034 360104004638 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 360104004639 trimer interface [polypeptide binding]; other site 360104004640 dimer interface [polypeptide binding]; other site 360104004641 putative active site [active] 360104004642 Protein of unknown function (DUF493); Region: DUF493; pfam04359 360104004643 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional; Region: PLN03229 360104004644 Bacitracin resistance protein BacA; Region: BacA; pfam02673 360104004645 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 360104004646 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 360104004647 TPP-binding site [chemical binding]; other site 360104004648 dimer interface [polypeptide binding]; other site 360104004649 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 360104004650 PYR/PP interface [polypeptide binding]; other site 360104004651 dimer interface [polypeptide binding]; other site 360104004652 TPP binding site [chemical binding]; other site 360104004653 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 360104004654 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 360104004655 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 360104004656 substrate binding pocket [chemical binding]; other site 360104004657 chain length determination region; other site 360104004658 substrate-Mg2+ binding site; other site 360104004659 catalytic residues [active] 360104004660 aspartate-rich region 1; other site 360104004661 active site lid residues [active] 360104004662 aspartate-rich region 2; other site 360104004663 PDZ domain; Region: PDZ_2; pfam13180 360104004664 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 360104004665 protein binding site [polypeptide binding]; other site 360104004666 hypothetical protein; Provisional; Region: PRK03762 360104004667 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 360104004668 tetramerization interface [polypeptide binding]; other site 360104004669 active site 360104004670 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 360104004671 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360104004672 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360104004673 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 360104004674 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 360104004675 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 360104004676 substrate binding pocket [chemical binding]; other site 360104004677 membrane-bound complex binding site; other site 360104004678 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 360104004679 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 360104004680 Walker A/P-loop; other site 360104004681 ATP binding site [chemical binding]; other site 360104004682 Q-loop/lid; other site 360104004683 ABC transporter signature motif; other site 360104004684 Walker B; other site 360104004685 D-loop; other site 360104004686 H-loop/switch region; other site 360104004687 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 360104004688 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 360104004689 dimer interface [polypeptide binding]; other site 360104004690 conserved gate region; other site 360104004691 putative PBP binding loops; other site 360104004692 ABC-ATPase subunit interface; other site 360104004693 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 360104004694 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 360104004695 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 360104004696 alphaNTD homodimer interface [polypeptide binding]; other site 360104004697 alphaNTD - beta interaction site [polypeptide binding]; other site 360104004698 alphaNTD - beta' interaction site [polypeptide binding]; other site 360104004699 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 360104004700 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 360104004701 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 360104004702 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 360104004703 RNA binding surface [nucleotide binding]; other site 360104004704 30S ribosomal protein S11; Validated; Region: PRK05309 360104004705 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 360104004706 30S ribosomal protein S13; Region: bact_S13; TIGR03631 360104004707 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 360104004708 rRNA binding site [nucleotide binding]; other site 360104004709 predicted 30S ribosome binding site; other site 360104004710 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 360104004711 active site 360104004712 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 360104004713 SecY translocase; Region: SecY; pfam00344 360104004714 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 360104004715 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 360104004716 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 360104004717 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 360104004718 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 360104004719 5S rRNA interface [nucleotide binding]; other site 360104004720 23S rRNA interface [nucleotide binding]; other site 360104004721 L5 interface [polypeptide binding]; other site 360104004722 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 360104004723 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 360104004724 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 360104004725 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 360104004726 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 360104004727 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 360104004728 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 360104004729 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 360104004730 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 360104004731 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 360104004732 RNA binding site [nucleotide binding]; other site 360104004733 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 360104004734 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 360104004735 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 360104004736 putative translocon interaction site; other site 360104004737 23S rRNA interface [nucleotide binding]; other site 360104004738 signal recognition particle (SRP54) interaction site; other site 360104004739 L23 interface [polypeptide binding]; other site 360104004740 trigger factor interaction site; other site 360104004741 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 360104004742 23S rRNA interface [nucleotide binding]; other site 360104004743 5S rRNA interface [nucleotide binding]; other site 360104004744 putative antibiotic binding site [chemical binding]; other site 360104004745 L25 interface [polypeptide binding]; other site 360104004746 L27 interface [polypeptide binding]; other site 360104004747 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 360104004748 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 360104004749 G-X-X-G motif; other site 360104004750 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 360104004751 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 360104004752 putative translocon binding site; other site 360104004753 protein-rRNA interface [nucleotide binding]; other site 360104004754 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 360104004755 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 360104004756 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 360104004757 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 360104004758 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 360104004759 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 360104004760 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 360104004761 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 360104004762 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 360104004763 AAA domain; Region: AAA_14; pfam13173 360104004764 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 360104004765 RNA/DNA hybrid binding site [nucleotide binding]; other site 360104004766 active site 360104004767 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 360104004768 ribosome recycling factor; Reviewed; Region: frr; PRK00083 360104004769 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 360104004770 hinge region; other site 360104004771 Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u4_5s; cd10973 360104004772 putative active site [active] 360104004773 putative metal binding site [ion binding]; other site 360104004774 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 360104004775 thiamine-phosphate pyrophosphorylase; Provisional; Region: PRK02615 360104004776 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 360104004777 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 360104004778 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 360104004779 active site clefts [active] 360104004780 zinc binding site [ion binding]; other site 360104004781 dimer interface [polypeptide binding]; other site 360104004782 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360104004783 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104004784 metal binding site [ion binding]; metal-binding site 360104004785 active site 360104004786 I-site; other site 360104004787 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104004788 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 360104004789 metal binding site [ion binding]; metal-binding site 360104004790 active site 360104004791 I-site; other site 360104004792 TRAP transporter, DctM subunit; Region: dctM; TIGR00786 360104004793 DctM-like transporters; Region: DctM; pfam06808 360104004794 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 360104004795 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 360104004796 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 360104004797 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 360104004798 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 360104004799 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 360104004800 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 360104004801 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 360104004802 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104004803 homodimer interface [polypeptide binding]; other site 360104004804 catalytic residue [active] 360104004805 putative septicolysin, cholesterol-dependent cytolysin family and related proteins; Region: septicolysin_like; cd12208 360104004806 oligomer interface [polypeptide binding]; other site 360104004807 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 360104004808 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 360104004809 homodimer interface [polypeptide binding]; other site 360104004810 substrate-cofactor binding pocket; other site 360104004811 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104004812 catalytic residue [active] 360104004813 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 360104004814 dimer interface [polypeptide binding]; other site 360104004815 catalytic triad [active] 360104004816 peroxidatic and resolving cysteines [active] 360104004817 Family description; Region: UvrD_C_2; pfam13538 360104004818 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 360104004819 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 360104004820 active site 360104004821 Int/Topo IB signature motif; other site 360104004822 Helix-turn-helix domain; Region: HTH_17; pfam12728 360104004823 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 360104004824 non-specific DNA binding site [nucleotide binding]; other site 360104004825 salt bridge; other site 360104004826 sequence-specific DNA binding site [nucleotide binding]; other site 360104004827 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 360104004828 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 360104004829 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 360104004830 Terminase-like family; Region: Terminase_6; pfam03237 360104004831 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 360104004832 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 360104004833 serine/threonine protein kinase; Provisional; Region: PRK14879 360104004834 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 360104004835 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 360104004836 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 360104004837 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 360104004838 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 360104004839 dimer interface [polypeptide binding]; other site 360104004840 putative radical transfer pathway; other site 360104004841 diiron center [ion binding]; other site 360104004842 tyrosyl radical; other site 360104004843 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 360104004844 Predicted amidohydrolase [General function prediction only]; Region: COG0388 360104004845 active site 360104004846 catalytic triad [active] 360104004847 dimer interface [polypeptide binding]; other site 360104004848 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 360104004849 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 360104004850 S-adenosylmethionine binding site [chemical binding]; other site 360104004851 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 360104004852 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 360104004853 DHH family; Region: DHH; pfam01368 360104004854 DHHA1 domain; Region: DHHA1; pfam02272 360104004855 CTP synthetase; Validated; Region: pyrG; PRK05380 360104004856 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 360104004857 Catalytic site [active] 360104004858 active site 360104004859 UTP binding site [chemical binding]; other site 360104004860 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 360104004861 active site 360104004862 putative oxyanion hole; other site 360104004863 catalytic triad [active] 360104004864 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 360104004865 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 360104004866 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 360104004867 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 360104004868 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 360104004869 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 360104004870 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 360104004871 Zn binding sites [ion binding]; other site 360104004872 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 360104004873 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004874 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004875 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004876 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004877 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004878 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004879 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004880 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004881 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004882 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004883 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004884 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004885 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004886 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004887 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 360104004888 active site 360104004889 homotetramer interface [polypeptide binding]; other site 360104004890 homodimer interface [polypeptide binding]; other site 360104004891 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 360104004892 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 360104004893 dimer interface [polypeptide binding]; other site 360104004894 substrate binding site [chemical binding]; other site 360104004895 ATP binding site [chemical binding]; other site 360104004896 Response regulator receiver domain; Region: Response_reg; pfam00072 360104004897 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 360104004898 active site 360104004899 phosphorylation site [posttranslational modification] 360104004900 intermolecular recognition site; other site 360104004901 dimerization interface [polypeptide binding]; other site 360104004902 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 360104004903 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 360104004904 ATP binding site [chemical binding]; other site 360104004905 G-X-G motif; other site 360104004906 putative disulfide oxidoreductase; Provisional; Region: PRK04307 360104004907 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 360104004908 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 360104004909 catalytic residues [active] 360104004910 hinge region; other site 360104004911 alpha helical domain; other site 360104004912 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 360104004913 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 360104004914 non-heme iron binding site [ion binding]; other site 360104004915 dimer interface [polypeptide binding]; other site 360104004916 Rubrerythrin [Energy production and conversion]; Region: COG1592 360104004917 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 360104004918 binuclear metal center [ion binding]; other site 360104004919 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 360104004920 iron binding site [ion binding]; other site 360104004921 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 360104004922 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 360104004923 Tannase and feruloyl esterase; Region: Tannase; pfam07519 360104004924 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 360104004925 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 360104004926 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 360104004927 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 360104004928 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 360104004929 classical (c) SDRs; Region: SDR_c; cd05233 360104004930 NAD(P) binding site [chemical binding]; other site 360104004931 active site 360104004932 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 360104004933 NADH(P)-binding; Region: NAD_binding_10; pfam13460 360104004934 NAD binding site [chemical binding]; other site 360104004935 active site 360104004936 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 360104004937 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 360104004938 dimer interface [polypeptide binding]; other site 360104004939 active site 360104004940 metal binding site [ion binding]; metal-binding site 360104004941 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 360104004942 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 360104004943 FeS/SAM binding site; other site 360104004944 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 360104004945 ATP cone domain; Region: ATP-cone; pfam03477 360104004946 Class III ribonucleotide reductase; Region: RNR_III; cd01675 360104004947 effector binding site; other site 360104004948 active site 360104004949 Zn binding site [ion binding]; other site 360104004950 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 360104004951 ATP cone domain; Region: ATP-cone; pfam03477 360104004952 Class I ribonucleotide reductase; Region: RNR_I; cd01679 360104004953 active site 360104004954 dimer interface [polypeptide binding]; other site 360104004955 catalytic residues [active] 360104004956 effector binding site; other site 360104004957 R2 peptide binding site; other site 360104004958 adenylosuccinate lyase; Provisional; Region: PRK08470 360104004959 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 360104004960 tetramer interface [polypeptide binding]; other site 360104004961 active site 360104004962 Adenylosuccinate lyase C-terminus; Region: ADSL_C; smart00998 360104004963 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 360104004964 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 360104004965 active site 360104004966 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 360104004967 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 360104004968 FeS/SAM binding site; other site 360104004969 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 360104004970 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 360104004971 substrate binding site [chemical binding]; other site 360104004972 glutamase interaction surface [polypeptide binding]; other site 360104004973 AAA domain; Region: AAA_11; pfam13086 360104004974 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 360104004975 AAA domain; Region: AAA_12; pfam13087 360104004976 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 360104004977 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 360104004978 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 360104004979 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 360104004980 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 360104004981 KpsF/GutQ family protein; Region: kpsF; TIGR00393 360104004982 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 360104004983 putative active site [active] 360104004984 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 360104004985 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 360104004986 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 360104004987 RNA binding surface [nucleotide binding]; other site 360104004988 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 360104004989 active site 360104004990 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360104004991 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 360104004992 Walker A/P-loop; other site 360104004993 ATP binding site [chemical binding]; other site 360104004994 Q-loop/lid; other site 360104004995 ABC transporter signature motif; other site 360104004996 Walker B; other site 360104004997 D-loop; other site 360104004998 H-loop/switch region; other site 360104004999 FtsX-like permease family; Region: FtsX; pfam02687 360104005000 NosL; Region: NosL; cl01769 360104005001 Sel1-like repeats; Region: SEL1; smart00671 360104005002 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360104005003 Sel1-like repeats; Region: SEL1; smart00671 360104005004 Sel1-like repeats; Region: SEL1; smart00671 360104005005 Sel1-like repeats; Region: SEL1; smart00671 360104005006 Sel1 repeat; Region: Sel1; cl02723 360104005007 Sel1 repeat; Region: Sel1; cl02723 360104005008 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 360104005009 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 360104005010 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 360104005011 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 360104005012 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 360104005013 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 360104005014 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 360104005015 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 360104005016 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360104005017 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 360104005018 ATP binding site [chemical binding]; other site 360104005019 G-X-G motif; other site 360104005020 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360104005021 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 360104005022 active site 360104005023 phosphorylation site [posttranslational modification] 360104005024 intermolecular recognition site; other site 360104005025 dimerization interface [polypeptide binding]; other site 360104005026 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 360104005027 DNA binding site [nucleotide binding] 360104005028 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360104005029 active site 360104005030 Predicted permease [General function prediction only]; Region: COG2056 360104005031 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 360104005032 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 360104005033 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 360104005034 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 360104005035 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 360104005036 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 360104005037 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 360104005038 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 360104005039 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 360104005040 S-ribosylhomocysteinase; Provisional; Region: PRK02260 360104005041 Cache domain; Region: Cache_1; pfam02743 360104005042 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 360104005043 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360104005044 dimer interface [polypeptide binding]; other site 360104005045 putative CheW interface [polypeptide binding]; other site 360104005046 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 360104005047 MOSC domain; Region: MOSC; pfam03473 360104005048 3-alpha domain; Region: 3-alpha; pfam03475 360104005049 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 360104005050 active site 360104005051 putative DNA-binding cleft [nucleotide binding]; other site 360104005052 dimer interface [polypeptide binding]; other site