-- dump date 20120504_140454 -- 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 Surface antigen; Region: Bac_surface_Ag; cl03097 360104000012 haemagglutination activity domain; Region: Haemagg_act; cl05436 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; cl01530 360104000017 Abi-like protein; Region: Abi_2; cl01988 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; cl03080 360104000030 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104000031 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 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 bacteriocins; Region: Peptidase_C39G; cd02423 360104000033 putative active site [active] 360104000034 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 360104000035 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 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; cl00075 360104000053 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 360104000054 anchoring element; other site 360104000055 dimer interface [polypeptide binding]; other site 360104000056 ATP binding site [chemical binding]; other site 360104000057 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 360104000058 active site 360104000059 putative metal-binding site [ion binding]; other site 360104000060 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 360104000061 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 360104000062 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 360104000063 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 360104000064 RDD family; Region: RDD; cl00746 360104000065 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 360104000066 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 360104000067 dimerization interface [polypeptide binding]; other site 360104000068 putative ATP binding site [chemical binding]; other site 360104000069 dephospho-CoA kinase; Region: TIGR00152 360104000070 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 360104000071 CoA-binding site [chemical binding]; other site 360104000072 ATP-binding [chemical binding]; other site 360104000073 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 360104000074 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 360104000075 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 360104000076 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 360104000077 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 360104000078 23S rRNA binding site [nucleotide binding]; other site 360104000079 L21 binding site [polypeptide binding]; other site 360104000080 L13 binding site [polypeptide binding]; other site 360104000081 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 360104000082 Dipeptidase [Amino acid transport and metabolism]; Region: PepD; COG4690 360104000083 Peptidase family C69; Region: Peptidase_C69; pfam03577 360104000084 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 360104000085 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 360104000086 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 360104000087 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 360104000088 recombination factor protein RarA; Reviewed; Region: PRK13342 360104000089 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 360104000090 Walker A motif; other site 360104000091 ATP binding site [chemical binding]; other site 360104000092 Walker B motif; other site 360104000093 arginine finger; other site 360104000094 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 360104000095 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 360104000096 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 360104000097 ligand binding site [chemical binding]; other site 360104000098 active site 360104000099 UGI interface [polypeptide binding]; other site 360104000100 catalytic site [active] 360104000101 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 360104000102 putative deacylase active site [active] 360104000103 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 360104000104 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 360104000105 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 360104000106 active site 360104000107 dimer interface [polypeptide binding]; other site 360104000108 motif 1; other site 360104000109 motif 2; other site 360104000110 motif 3; other site 360104000111 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 360104000112 anticodon binding site; other site 360104000113 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 360104000114 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 360104000115 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 360104000116 glutamate dehydrogenase; Provisional; Region: PRK09414 360104000117 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 360104000118 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 360104000119 NAD(P) binding site [chemical binding]; other site 360104000120 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 360104000121 PQQ-like domain; Region: PQQ_2; pfam13360 360104000122 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 360104000123 acetyl-CoA carboxylase subunit A; Validated; Region: PRK08463 360104000124 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360104000125 ATP-grasp domain; Region: ATP-grasp_4; cl03087 360104000126 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 360104000127 TM2 domain; Region: TM2; cl00984 360104000128 Short C-terminal domain; Region: SHOCT; cl01373 360104000129 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 360104000130 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14324 360104000131 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 360104000132 active site 360104000133 substrate binding site [chemical binding]; other site 360104000134 metal binding site [ion binding]; metal-binding site 360104000135 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 360104000136 peptide chain release factor 1; Validated; Region: prfA; PRK00591 360104000137 RF-1 domain; Region: RF-1; cl02875 360104000138 RF-1 domain; Region: RF-1; cl02875 360104000139 TOBE domain; Region: TOBE_2; cl01440 360104000140 TOBE domain; Region: TOBE_2; cl01440 360104000141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104000142 FAD binding domain; Region: FAD_binding_2; pfam00890 360104000143 Helix-turn-helix domains; Region: HTH; cl00088 360104000144 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 360104000145 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 360104000146 putative catalytic site [active] 360104000147 putative metal binding site [ion binding]; other site 360104000148 putative phosphate binding site [ion binding]; other site 360104000149 Domain of unknown function DUF; Region: DUF204; pfam02659 360104000150 Domain of unknown function DUF; Region: DUF204; pfam02659 360104000151 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 360104000152 EamA-like transporter family; Region: EamA; cl01037 360104000153 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 360104000154 S-adenosylmethionine binding site [chemical binding]; other site 360104000155 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 360104000156 active site 360104000157 Helix-turn-helix domains; Region: HTH; cl00088 360104000158 metal binding site 2 [ion binding]; metal-binding site 360104000159 putative DNA binding helix; other site 360104000160 metal binding site 1 [ion binding]; metal-binding site 360104000161 dimer interface [polypeptide binding]; other site 360104000162 structural Zn2+ binding site [ion binding]; other site 360104000163 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 360104000164 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 360104000165 putative metal binding residues [ion binding]; other site 360104000166 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 360104000167 High-affinity nickel-transport protein; Region: NicO; cl00964 360104000168 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 360104000169 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 360104000170 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 360104000171 putative PBP binding regions; other site 360104000172 ABC-ATPase subunit interface; other site 360104000173 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 360104000174 MatE; Region: MatE; cl10513 360104000175 MatE; Region: MatE; cl10513 360104000176 Integral membrane protein TerC family; Region: TerC; cl10468 360104000177 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 360104000178 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 360104000179 active site 360104000180 substrate binding site [chemical binding]; other site 360104000181 cosubstrate binding site; other site 360104000182 catalytic site [active] 360104000183 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 360104000184 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 360104000185 putative substrate binding site [chemical binding]; other site 360104000186 putative ATP binding site [chemical binding]; other site 360104000187 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 360104000188 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 360104000189 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 360104000190 Walker A motif; other site 360104000191 ATP binding site [chemical binding]; other site 360104000192 Walker B motif; other site 360104000193 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 360104000194 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 360104000195 active site 360104000196 catalytic residues [active] 360104000197 metal binding site [ion binding]; metal-binding site 360104000198 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104000199 metal binding site [ion binding]; metal-binding site 360104000200 active site 360104000201 I-site; other site 360104000202 Clp protease; Region: CLP_protease; pfam00574 360104000203 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 360104000204 oligomer interface [polypeptide binding]; other site 360104000205 active site residues [active] 360104000206 trigger factor; Provisional; Region: tig; PRK01490 360104000207 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 360104000208 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 360104000209 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 360104000210 homodecamer interface [polypeptide binding]; other site 360104000211 GTP cyclohydrolase I; Provisional; Region: PLN03044 360104000212 active site 360104000213 putative catalytic site residues [active] 360104000214 zinc binding site [ion binding]; other site 360104000215 GTP-CH-I/GFRP interaction surface; other site 360104000216 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08472 360104000217 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 360104000218 Walker A motif/ATP binding site; other site 360104000219 Walker B motif; other site 360104000220 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 360104000221 Predicted ATPase [General function prediction only]; Region: COG4637 360104000222 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104000223 Walker A/P-loop; other site 360104000224 ATP binding site [chemical binding]; other site 360104000225 ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The...; Region: ABC_ATPase; cd00267 360104000226 ABC transporter signature motif; other site 360104000227 Walker B; other site 360104000228 D-loop; other site 360104000229 H-loop/switch region; other site 360104000230 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 360104000231 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 360104000232 Walker A motif; other site 360104000233 ATP binding site [chemical binding]; other site 360104000234 Walker B motif; other site 360104000235 arginine finger; other site 360104000236 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 360104000237 AMP-binding enzyme; Region: AMP-binding; cl15778 360104000238 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 360104000239 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 360104000240 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 360104000241 PAS domain; Region: PAS_9; pfam13426 360104000242 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 360104000243 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 360104000244 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 360104000245 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 360104000246 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 360104000247 molybdopterin cofactor binding site; other site 360104000248 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_CT_DMSOR-BSOR-TMAOR; cd02793 360104000249 molybdopterin cofactor binding site; other site 360104000250 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 360104000251 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12812 360104000252 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 360104000253 FlgD Ig-like domain; Region: FlgD_ig; cl15790 360104000254 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 360104000255 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 360104000256 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 360104000257 G1 box; other site 360104000258 putative GEF interaction site [polypeptide binding]; other site 360104000259 GTP/Mg2+ binding site [chemical binding]; other site 360104000260 Switch I region; other site 360104000261 G2 box; other site 360104000262 G3 box; other site 360104000263 Switch II region; other site 360104000264 G4 box; other site 360104000265 G5 box; other site 360104000266 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 360104000267 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 360104000268 EamA-like transporter family; Region: EamA; cl01037 360104000269 EamA-like transporter family; Region: EamA; cl01037 360104000270 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 360104000271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 360104000272 TolB amino-terminal domain; Region: TolB_N; cl00639 360104000273 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 360104000274 MatE; Region: MatE; cl10513 360104000275 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 360104000276 benzoyl-CoA reductase, bzd-type, N subunit; Region: benz_CoA_bzdN; cl11464 360104000277 2-hydroxyglutaryl-CoA dehydratase, D-component; Region: HGD-D; pfam06050 360104000278 amidophosphoribosyltransferase; Provisional; Region: PRK08525 360104000279 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 360104000280 active site 360104000281 tetramer interface [polypeptide binding]; other site 360104000282 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360104000283 active site 360104000284 dihydrodipicolinate reductase; Provisional; Region: PRK00048 360104000285 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104000286 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 360104000287 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 360104000288 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104000289 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360104000290 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 360104000291 catalytic residues [active] 360104000292 Restriction endonuclease; Region: Mrr_cat; cl00516 360104000293 homoserine dehydrogenase; Provisional; Region: PRK06349 360104000294 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104000295 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 360104000296 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 360104000297 aminotransferase; Validated; Region: PRK08175 360104000298 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 360104000299 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104000300 homodimer interface [polypeptide binding]; other site 360104000301 catalytic residue [active] 360104000302 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 360104000303 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 360104000304 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 360104000305 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 360104000306 Predicted methyltransferases [General function prediction only]; Region: COG0313 360104000307 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 360104000308 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 360104000309 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 360104000310 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 360104000311 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 360104000312 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 360104000313 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 360104000314 FeS/SAM binding site; other site 360104000315 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 360104000316 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 360104000317 FeS/SAM binding site; other site 360104000318 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 360104000319 UbiA prenyltransferase family; Region: UbiA; cl00337 360104000320 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 360104000321 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104000322 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 360104000323 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 360104000324 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 360104000325 trimerization site [polypeptide binding]; other site 360104000326 active site 360104000327 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 360104000328 NifU-like domain; Region: NifU; cl00484 360104000329 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 360104000330 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 360104000331 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360104000332 catalytic residue [active] 360104000333 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 360104000334 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522; cl01406 360104000335 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 360104000336 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; cl01370 360104000337 type VI secretion-associated protein, VC_A0119 family; Region: VI_chp_7; TIGR03362 360104000338 Protein of unknown function (DUF770); Region: DUF770; cl01402 360104000339 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 360104000340 Protein of unknown function (DUF877); Region: DUF877; pfam05943 360104000341 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 360104000342 Protein of unknown function (DUF796); Region: DUF796; cl01226 360104000343 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 360104000344 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 360104000345 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 360104000346 baseplate hub subunit and tail lysozyme; Provisional; Region: 5; PHA02596 360104000347 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 360104000348 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 360104000349 amphipathic channel; other site 360104000350 Asn-Pro-Ala signature motifs; other site 360104000351 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 360104000352 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 360104000353 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 360104000354 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 360104000355 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 360104000356 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 360104000357 Helix-turn-helix domains; Region: HTH; cl00088 360104000358 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 360104000359 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360104000360 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 360104000361 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 360104000362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104000363 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 360104000364 hypothetical protein; Provisional; Region: PRK04081 360104000365 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl00503 360104000366 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 360104000367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104000368 Protein of unknown function (DUF520); Region: DUF520; cl00723 360104000369 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 360104000370 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 360104000371 FeS/SAM binding site; other site 360104000372 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 360104000373 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 360104000374 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 360104000375 Walker A/P-loop; other site 360104000376 ATP binding site [chemical binding]; other site 360104000377 Q-loop/lid; other site 360104000378 ABC transporter signature motif; other site 360104000379 Walker B; other site 360104000380 D-loop; other site 360104000381 H-loop/switch region; other site 360104000382 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 360104000383 NADH dehydrogenase subunit B; Validated; Region: PRK06411 360104000384 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 360104000385 NADH dehydrogenase subunit G; Validated; Region: PRK08493 360104000386 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 360104000387 catalytic loop [active] 360104000388 iron binding site [ion binding]; other site 360104000389 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 360104000390 4Fe-4S binding domain; Region: Fer4; cl02805 360104000391 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 360104000392 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 360104000393 molybdopterin cofactor binding site; other site 360104000394 NADH dehydrogenase; Region: NADHdh; cl00469 360104000395 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 360104000396 4Fe-4S binding domain; Region: Fer4; cl02805 360104000397 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 360104000398 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 360104000399 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 360104000400 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 360104000401 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 360104000402 NADH dehydrogenase subunit 2; Provisional; Region: ND2; MTH00144 360104000403 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 360104000404 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 360104000405 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 360104000406 Surface antigen; Region: Bac_surface_Ag; cl03097 360104000407 haemagglutination activity domain; Region: Haemagg_act; cl05436 360104000408 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 360104000409 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 360104000410 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 360104000411 Protein of unknown function (DUF2614); Region: DUF2614; cl07936 360104000412 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 360104000413 putative active site [active] 360104000414 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 360104000415 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 360104000416 dimer interface [polypeptide binding]; other site 360104000417 PYR/PP interface [polypeptide binding]; other site 360104000418 TPP binding site [chemical binding]; other site 360104000419 substrate binding site [chemical binding]; other site 360104000420 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 360104000421 Domain of unknown function; Region: EKR; cl11037 360104000422 4Fe-4S binding domain; Region: Fer4; cl02805 360104000423 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 360104000424 TPP-binding site [chemical binding]; other site 360104000425 dimer interface [polypeptide binding]; other site 360104000426 putative arabinose transporter; Provisional; Region: PRK03545 360104000427 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 360104000428 putative substrate translocation pore; other site 360104000429 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 360104000430 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 360104000431 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360104000432 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 360104000433 Walker A/P-loop; other site 360104000434 ATP binding site [chemical binding]; other site 360104000435 Q-loop/lid; other site 360104000436 ABC transporter signature motif; other site 360104000437 Walker B; other site 360104000438 D-loop; other site 360104000439 H-loop/switch region; other site 360104000440 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 360104000441 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 360104000442 dimer interface [polypeptide binding]; other site 360104000443 conserved gate region; other site 360104000444 putative PBP binding loops; other site 360104000445 ABC-ATPase subunit interface; other site 360104000446 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360104000447 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 360104000448 substrate binding pocket [chemical binding]; other site 360104000449 membrane-bound complex binding site; other site 360104000450 hinge residues; other site 360104000451 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360104000452 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 360104000453 substrate binding pocket [chemical binding]; other site 360104000454 membrane-bound complex binding site; other site 360104000455 hinge residues; other site 360104000456 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360104000457 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 360104000458 substrate binding pocket [chemical binding]; other site 360104000459 membrane-bound complex binding site; other site 360104000460 hinge residues; other site 360104000461 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 360104000462 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 360104000463 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 360104000464 putative acyl-acceptor binding pocket; other site 360104000465 AMP-binding enzyme; Region: AMP-binding; cl15778 360104000466 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 360104000467 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104000468 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 360104000469 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 360104000470 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 360104000471 [2Fe-2S] cluster binding site [ion binding]; other site 360104000472 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 360104000473 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 360104000474 intrachain domain interface; other site 360104000475 interchain domain interface [polypeptide binding]; other site 360104000476 heme bH binding site [chemical binding]; other site 360104000477 heme bL binding site [chemical binding]; other site 360104000478 Qo binding site; other site 360104000479 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 360104000480 interchain domain interface [polypeptide binding]; other site 360104000481 intrachain domain interface; other site 360104000482 Qi binding site; other site 360104000483 Qo binding site; other site 360104000484 Cytochrome c; Region: Cytochrom_C; cl11414 360104000485 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 360104000486 Cytochrome c; Region: Cytochrom_C; cl11414 360104000487 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 360104000488 putative oxidoreductase Fe-S binding subunit; Reviewed; Region: PRK12769 360104000489 4Fe-4S binding domain; Region: Fer4; cl02805 360104000490 hydrogenase 4 subunit B; Validated; Region: PRK06521 360104000491 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 360104000492 NADH dehydrogenase; Region: NADHdh; cl00469 360104000493 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 360104000494 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 360104000495 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl15771 360104000496 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 360104000497 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 360104000498 formate hydrogenlyase complex iron-sulfur subunit; Provisional; Region: PRK12387 360104000499 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 360104000500 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 360104000501 Formate hydrogenlyase maturation protein HycH; Region: HycH; cl06472 360104000502 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 360104000503 nickel binding site [ion binding]; other site 360104000504 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 360104000505 Protein of unknown function (DUF507); Region: DUF507; cl01112 360104000506 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 360104000507 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360104000508 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 360104000509 ATP binding site [chemical binding]; other site 360104000510 G-X-G motif; other site 360104000511 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360104000512 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 360104000513 active site 360104000514 phosphorylation site [posttranslational modification] 360104000515 intermolecular recognition site; other site 360104000516 dimerization interface [polypeptide binding]; other site 360104000517 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 360104000518 DNA binding site [nucleotide binding] 360104000519 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 360104000520 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 360104000521 Cytochrome c; Region: Cytochrom_C; cl11414 360104000522 Family of unknown function (DUF4006); Region: DUF4006; pfam13179 360104000523 FixH; Region: FixH; cl01254 360104000524 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 360104000525 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 360104000526 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 360104000527 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 360104000528 putative recombination protein RecB; Provisional; Region: PRK13909 360104000529 Family description; Region: UvrD_C_2; cl15862 360104000530 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 360104000531 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 360104000532 23S rRNA interface [nucleotide binding]; other site 360104000533 L3 interface [polypeptide binding]; other site 360104000534 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 360104000535 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 360104000536 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360104000537 ligand binding site [chemical binding]; other site 360104000538 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 360104000539 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 360104000540 active site 360104000541 motif I; other site 360104000542 motif II; other site 360104000543 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 360104000544 flavoprotein, HI0933 family; Region: TIGR00275 360104000545 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104000546 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104000547 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 360104000548 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360104000549 putative substrate translocation pore; other site 360104000550 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 360104000551 active site 360104000552 dimerization interface [polypeptide binding]; other site 360104000553 Tetratricopeptide repeat; Region: TPR_12; pfam13424 360104000554 Tetratricopeptide repeat; Region: TPR_12; pfam13424 360104000555 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 360104000556 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 360104000557 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104000558 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 360104000559 RmuC family; Region: RmuC; pfam02646 360104000560 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 360104000561 hydrogenase 2 protein HybA; Provisional; Region: PRK10882 360104000562 selenocysteine synthase; Provisional; Region: PRK04311 360104000563 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 360104000564 Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]; Region: SelB; COG3276 360104000565 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 360104000566 G1 box; other site 360104000567 putative GEF interaction site [polypeptide binding]; other site 360104000568 GTP/Mg2+ binding site [chemical binding]; other site 360104000569 Switch I region; other site 360104000570 G2 box; other site 360104000571 G3 box; other site 360104000572 Switch II region; other site 360104000573 G4 box; other site 360104000574 G5 box; other site 360104000575 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 360104000576 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 360104000577 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 360104000578 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 360104000579 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 360104000580 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 360104000581 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 360104000582 molybdopterin cofactor binding site; other site 360104000583 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 360104000584 4Fe-4S binding domain; Region: Fer4; cl02805 360104000585 Iron permease FTR1 family; Region: FTR1; cl00475 360104000586 Fe2+ transport protein; Region: Iron_transport; cl01377 360104000587 Predicted membrane protein [Function unknown]; Region: COG4393 360104000588 Predicted membrane protein (DUF2318); Region: DUF2318; pfam10080 360104000589 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 360104000590 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 360104000591 FtsX-like permease family; Region: FtsX; cl15850 360104000592 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 360104000593 FtsX-like permease family; Region: FtsX; cl15850 360104000594 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360104000595 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 360104000596 Walker A/P-loop; other site 360104000597 ATP binding site [chemical binding]; other site 360104000598 Q-loop/lid; other site 360104000599 ABC transporter signature motif; other site 360104000600 Walker B; other site 360104000601 D-loop; other site 360104000602 H-loop/switch region; other site 360104000603 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 360104000604 catalytic residues [active] 360104000605 Protein of unknown function (DUF2920); Region: DUF2920; pfam11144 360104000606 seryl-tRNA synthetase; Provisional; Region: PRK05431 360104000607 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 360104000608 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 bound...; Region: SerRS_core; cd00770 360104000609 dimer interface [polypeptide binding]; other site 360104000610 active site 360104000611 motif 1; other site 360104000612 motif 2; other site 360104000613 motif 3; other site 360104000614 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 360104000615 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 360104000616 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 360104000617 active site 360104000618 HIGH motif; other site 360104000619 dimer interface [polypeptide binding]; other site 360104000620 KMSKS motif; other site 360104000621 shikimate kinase; Reviewed; Region: aroK; PRK00131 360104000622 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 360104000623 ADP binding site [chemical binding]; other site 360104000624 magnesium binding site [ion binding]; other site 360104000625 putative shikimate binding site; other site 360104000626 GTP-binding protein Der; Reviewed; Region: PRK00093 360104000627 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 360104000628 G1 box; other site 360104000629 GTP/Mg2+ binding site [chemical binding]; other site 360104000630 Switch I region; other site 360104000631 G2 box; other site 360104000632 Switch II region; other site 360104000633 G3 box; other site 360104000634 G4 box; other site 360104000635 G5 box; other site 360104000636 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 360104000637 G1 box; other site 360104000638 GTP/Mg2+ binding site [chemical binding]; other site 360104000639 Switch I region; other site 360104000640 G2 box; other site 360104000641 G3 box; other site 360104000642 Switch II region; other site 360104000643 G4 box; other site 360104000644 G5 box; other site 360104000645 EamA-like transporter family; Region: EamA; cl01037 360104000646 NeuB family; Region: NeuB; cl00496 360104000647 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 360104000648 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 360104000649 homopentamer interface [polypeptide binding]; other site 360104000650 active site 360104000651 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 360104000652 putative RNA binding site [nucleotide binding]; other site 360104000653 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 360104000654 binding surface 360104000655 TPR motif; other site 360104000656 TPR repeat; Region: TPR_11; pfam13414 360104000657 DNA primase, catalytic core; Region: dnaG; TIGR01391 360104000658 CHC2 zinc finger; Region: zf-CHC2; cl15369 360104000659 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 360104000660 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 360104000661 active site 360104000662 metal binding site [ion binding]; metal-binding site 360104000663 interdomain interaction site; other site 360104000664 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 360104000665 M20 Peptidases Aminoacyclase-1 indole-3-acetic-L-aspartic acid hydrolase from bacteria and archaea; Region: M20_Acy1_IAAspH_bact; cd05665 360104000666 putative metal binding site [ion binding]; other site 360104000667 dimer interface [polypeptide binding]; other site 360104000668 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 360104000669 active site pocket [active] 360104000670 oxyanion hole [active] 360104000671 catalytic triad [active] 360104000672 active site nucleophile [active] 360104000673 peptidase T; Region: peptidase-T; TIGR01882 360104000674 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 360104000675 metal binding site [ion binding]; metal-binding site 360104000676 dimer interface [polypeptide binding]; other site 360104000677 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 360104000678 Ligand Binding Site [chemical binding]; other site 360104000679 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 360104000680 Protein of unknown function (DUF996); Region: DUF996; cl00970 360104000681 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 360104000682 active site 360104000683 DNA binding site [nucleotide binding] 360104000684 Int/Topo IB signature motif; other site 360104000685 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 360104000686 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104000687 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 360104000688 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 360104000689 salt bridge; other site 360104000690 non-specific DNA binding site [nucleotide binding]; other site 360104000691 sequence-specific DNA binding site [nucleotide binding]; other site 360104000692 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 360104000693 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 360104000694 Walker A motif; other site 360104000695 ATP binding site [chemical binding]; other site 360104000696 Walker B motif; other site 360104000697 arginine finger; other site 360104000698 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 360104000699 Walker A motif; other site 360104000700 ATP binding site [chemical binding]; other site 360104000701 Walker B motif; other site 360104000702 arginine finger; other site 360104000703 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 360104000704 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 360104000705 Protein of unknown function DUF91; Region: DUF91; cl00709 360104000706 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 360104000707 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 360104000708 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; cl15754 360104000709 cofactor binding site; other site 360104000710 DNA binding site [nucleotide binding] 360104000711 substrate interaction site [chemical binding]; other site 360104000712 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; cl15754 360104000713 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 360104000714 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; cl15754 360104000715 cofactor binding site; other site 360104000716 DNA binding site [nucleotide binding] 360104000717 substrate interaction site [chemical binding]; other site 360104000718 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; cl15754 360104000719 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104000720 LlaJI restriction endonuclease; Region: RE_LlaJI; pfam09563 360104000721 Protein of unknown function DUF262; Region: DUF262; cl14890 360104000722 NAD-dependent deacetylase; Provisional; Region: PRK00481 360104000723 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 360104000724 Predicted transcriptional regulator [Transcription]; Region: COG2378 360104000725 Helix-turn-helix domains; Region: HTH; cl00088 360104000726 WYL domain; Region: WYL; cl14852 360104000727 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 360104000728 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 360104000729 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 360104000730 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104000731 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 360104000732 Sulphur transport; Region: Sulf_transp; cl01018 360104000733 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 360104000734 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 360104000735 dimer interface [polypeptide binding]; other site 360104000736 putative functional site; other site 360104000737 putative MPT binding site; other site 360104000738 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 360104000739 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 360104000740 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 360104000741 pyruvate kinase; Provisional; Region: PRK05826 360104000742 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; cl09155 360104000743 domain interfaces; other site 360104000744 active site 360104000745 chaperone protein DnaJ; Provisional; Region: PRK10767 360104000746 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 360104000747 HSP70 interaction site [polypeptide binding]; other site 360104000748 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 360104000749 substrate binding site [polypeptide binding]; other site 360104000750 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 360104000751 Zn binding sites [ion binding]; other site 360104000752 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 360104000753 dimer interface [polypeptide binding]; other site 360104000754 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360104000755 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 360104000756 active site 360104000757 phosphorylation site [posttranslational modification] 360104000758 intermolecular recognition site; other site 360104000759 dimerization interface [polypeptide binding]; other site 360104000760 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 360104000761 DNA binding site [nucleotide binding] 360104000762 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360104000763 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; cl00075 360104000764 recombination protein RecR; Reviewed; Region: recR; PRK00076 360104000765 RecR protein; Region: RecR; pfam02132 360104000766 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 360104000767 active site 360104000768 metal binding site [ion binding]; metal-binding site 360104000769 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional; Region: PRK14607 360104000770 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 360104000771 glutamine binding [chemical binding]; other site 360104000772 catalytic triad [active] 360104000773 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 360104000774 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 360104000775 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 monomeric; Region: PRAI; cd00405 360104000776 active site 360104000777 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 360104000778 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 360104000779 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104000780 catalytic residue [active] 360104000781 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 360104000782 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 360104000783 substrate binding site [chemical binding]; other site 360104000784 active site 360104000785 catalytic residues [active] 360104000786 heterodimer interface [polypeptide binding]; other site 360104000787 Chemotaxis phosphatase CheX; Region: CheX; cl15816 360104000788 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 360104000789 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 360104000790 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 360104000791 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 360104000792 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 360104000793 dimer interface [polypeptide binding]; other site 360104000794 phosphorylation site [posttranslational modification] 360104000795 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 360104000796 Mg2+ binding site [ion binding]; other site 360104000797 G-X-G motif; other site 360104000798 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360104000799 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 360104000800 active site 360104000801 phosphorylation site [posttranslational modification] 360104000802 intermolecular recognition site; other site 360104000803 dimerization interface [polypeptide binding]; other site 360104000804 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 360104000805 DNA binding site [nucleotide binding] 360104000806 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 360104000807 active site 360104000808 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 360104000809 Domain of unknown function DUF87; Region: DUF87; pfam01935 360104000810 PilZ domain; Region: PilZ; cl01260 360104000811 peroxidase; Provisional; Region: PRK15000 360104000812 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 360104000813 dimer interface [polypeptide binding]; other site 360104000814 decamer (pentamer of dimers) interface [polypeptide binding]; other site 360104000815 catalytic triad [active] 360104000816 peroxidatic and resolving cysteines [active] 360104000817 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 360104000818 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 360104000819 dimer interface [polypeptide binding]; other site 360104000820 active site 360104000821 CoA binding pocket [chemical binding]; other site 360104000822 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 360104000823 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 360104000824 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 360104000825 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 360104000826 active site 360104000827 multimer interface [polypeptide binding]; other site 360104000828 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 360104000829 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 360104000830 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 360104000831 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 360104000832 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 360104000833 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104000834 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 360104000835 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104000836 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 360104000837 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 360104000838 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 360104000839 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 360104000840 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 360104000841 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 360104000842 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 360104000843 Domain of unknown function (DUF2088); Region: DUF2088; cl15406 360104000844 Protein of unknown function DUF111; Region: DUF111; cl03398 360104000845 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]; Region: COG1606 360104000846 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 360104000847 Ligand Binding Site [chemical binding]; other site 360104000848 NCAIR mutase (PurE)-related proteins [General function prediction only]; Region: COG1691 360104000849 AIR carboxylase; Region: AIRC; cl00310 360104000850 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 360104000851 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 360104000852 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 360104000853 Fumarase C-terminus; Region: Fumerase_C; cl00795 360104000854 Transcriptional regulators [Transcription]; Region: GntR; COG1802 360104000855 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 360104000856 DNA-binding site [nucleotide binding]; DNA binding site 360104000857 FCD domain; Region: FCD; cl11656 360104000858 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 360104000859 active site 360104000860 homotetramer interface [polypeptide binding]; other site 360104000861 homodimer interface [polypeptide binding]; other site 360104000862 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; cl15357 360104000863 transmembrane helices; other site 360104000864 EF-hand domain pair; Region: EF_hand_5; pfam13499 360104000865 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; cl08302 360104000866 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 360104000867 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 360104000868 putative active site [active] 360104000869 substrate binding site [chemical binding]; other site 360104000870 putative cosubstrate binding site; other site 360104000871 catalytic site [active] 360104000872 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 360104000873 substrate binding site [chemical binding]; other site 360104000874 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 360104000875 dimer interface [polypeptide binding]; other site 360104000876 substrate binding site [chemical binding]; other site 360104000877 ATP binding site [chemical binding]; other site 360104000878 biotin--protein ligase; Provisional; Region: PRK08477 360104000879 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 360104000880 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 360104000881 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 360104000882 P-loop; other site 360104000883 Magnesium ion binding site [ion binding]; other site 360104000884 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 360104000885 Magnesium ion binding site [ion binding]; other site 360104000886 ParB-like partition proteins; Region: parB_part; TIGR00180 360104000887 ParB-like nuclease domain; Region: ParBc; cl02129 360104000888 Plant ATP synthase F0; Region: YMF19; cl07975 360104000889 F0F1 ATP synthase subunit B'; Validated; Region: PRK07353 360104000890 Plant ATP synthase F0; Region: YMF19; cl07975 360104000891 Plant ATP synthase F0; Region: YMF19; cl07975 360104000892 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 360104000893 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 360104000894 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 360104000895 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 360104000896 beta subunit interaction interface [polypeptide binding]; other site 360104000897 Walker A motif; other site 360104000898 ATP binding site [chemical binding]; other site 360104000899 Walker B motif; other site 360104000900 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 360104000901 ATP synthase; Region: ATP-synt; cl00365 360104000902 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 360104000903 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 360104000904 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 360104000905 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 360104000906 alpha subunit interaction interface [polypeptide binding]; other site 360104000907 Walker A motif; other site 360104000908 ATP binding site [chemical binding]; other site 360104000909 Walker B motif; other site 360104000910 inhibitor binding site; inhibition site 360104000911 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 360104000912 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 360104000913 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 360104000914 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 360104000915 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 360104000916 Gram-negative bacterial tonB protein; Region: TonB; cl10048 360104000917 translocation protein TolB; Provisional; Region: tolB; PRK04043 360104000918 TolB amino-terminal domain; Region: TolB_N; cl00639 360104000919 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 360104000920 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360104000921 ligand binding site [chemical binding]; other site 360104000922 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 360104000923 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 360104000924 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 360104000925 Acyl transferase domain; Region: Acyl_transf_1; cl08282 360104000926 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 360104000927 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 360104000928 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 360104000929 Ligand Binding Site [chemical binding]; other site 360104000930 Recombination protein O N terminal; Region: RecO_N; cl15812 360104000931 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 360104000932 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 360104000933 FMN binding site [chemical binding]; other site 360104000934 active site 360104000935 catalytic residues [active] 360104000936 substrate binding site [chemical binding]; other site 360104000937 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 360104000938 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 360104000939 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 360104000940 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 360104000941 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 360104000942 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 360104000943 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 360104000944 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 360104000945 Surface antigen; Region: Bac_surface_Ag; cl03097 360104000946 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104000947 Prephenate dehydrogenase; Region: PDH; pfam02153 360104000948 Peptidase family M23; Region: Peptidase_M23; pfam01551 360104000949 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 360104000950 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 360104000951 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 360104000952 homoserine kinase; Provisional; Region: PRK01212 360104000953 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 360104000954 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 360104000955 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 360104000956 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 360104000957 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 360104000958 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 360104000959 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 360104000960 G1 box; other site 360104000961 putative GEF interaction site [polypeptide binding]; other site 360104000962 GTP/Mg2+ binding site [chemical binding]; other site 360104000963 Switch I region; other site 360104000964 G2 box; other site 360104000965 G3 box; other site 360104000966 Switch II region; other site 360104000967 G4 box; other site 360104000968 G5 box; other site 360104000969 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 360104000970 Translation-initiation factor 2; Region: IF-2; pfam11987 360104000971 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 360104000972 Ribosome-binding factor A; Region: RBFA; cl00542 360104000973 ribosome maturation protein RimP; Reviewed; Region: PRK00092 360104000974 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 360104000975 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 360104000976 Sm1 motif; other site 360104000977 D1 - D2 interaction site; other site 360104000978 D3 - B interaction site; other site 360104000979 Hfq - Hfq interaction site; other site 360104000980 RNA binding pocket [nucleotide binding]; other site 360104000981 Sm2 motif; other site 360104000982 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 360104000983 catalytic motif [active] 360104000984 Zn binding site [ion binding]; other site 360104000985 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 360104000986 ATP synthase subunit C; Region: ATP-synt_C; cl00466 360104000987 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 360104000988 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 360104000989 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 360104000990 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 360104000991 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 360104000992 DctM-like transporters; Region: DctM; pfam06808 360104000993 Pyruvate/oxaloacetate carboxyltransferase [Energy production and conversion]; Region: COG5016 360104000994 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 360104000995 active site 360104000996 catalytic residues [active] 360104000997 metal binding site [ion binding]; metal-binding site 360104000998 homodimer binding site [polypeptide binding]; other site 360104000999 putative acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK05641 360104001000 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 360104001001 carboxyltransferase (CT) interaction site; other site 360104001002 biotinylation site [posttranslational modification]; other site 360104001003 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 360104001004 active site 360104001005 substrate-binding site [chemical binding]; other site 360104001006 metal-binding site [ion binding] 360104001007 ATP binding site [chemical binding]; other site 360104001008 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 360104001009 aspartate racemase; Region: asp_race; TIGR00035 360104001010 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 360104001011 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 360104001012 active site 360104001013 Transcriptional regulator; Region: Transcrip_reg; cl00361 360104001014 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360104001015 Coenzyme A binding pocket [chemical binding]; other site 360104001016 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 360104001017 conserved hypothetical protein; Region: TIGR02231 360104001018 argininosuccinate lyase; Provisional; Region: PRK00855 360104001019 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 360104001020 active sites [active] 360104001021 tetramer interface [polypeptide binding]; other site 360104001022 Homeobox associated leucine zipper; Region: HALZ; cl02577 360104001023 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360104001024 dimer interface [polypeptide binding]; other site 360104001025 putative CheW interface [polypeptide binding]; other site 360104001026 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 360104001027 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 360104001028 H+ Antiporter protein; Region: 2A0121; TIGR00900 360104001029 putative substrate translocation pore; other site 360104001030 NlpE N-terminal domain; Region: NlpE; cl01138 360104001031 NlpE N-terminal domain; Region: NlpE; cl01138 360104001032 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 360104001033 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 360104001034 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 360104001035 hypothetical protein; Provisional; Region: PRK08445 360104001036 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 360104001037 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 360104001038 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 360104001039 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 360104001040 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 360104001041 generic binding surface II; other site 360104001042 ssDNA binding site; other site 360104001043 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 360104001044 ATP binding site [chemical binding]; other site 360104001045 putative Mg++ binding site [ion binding]; other site 360104001046 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 360104001047 nucleotide binding region [chemical binding]; other site 360104001048 ATP-binding site [chemical binding]; other site 360104001049 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 360104001050 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 360104001051 Walker A/P-loop; other site 360104001052 ATP binding site [chemical binding]; other site 360104001053 Q-loop/lid; other site 360104001054 ABC transporter signature motif; other site 360104001055 Walker B; other site 360104001056 D-loop; other site 360104001057 H-loop/switch region; other site 360104001058 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 360104001059 ABC-ATPase subunit interface; other site 360104001060 dimer interface [polypeptide binding]; other site 360104001061 putative PBP binding regions; other site 360104001062 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 360104001063 putative ligand binding residues [chemical binding]; other site 360104001064 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 360104001065 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 360104001066 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 360104001067 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 360104001068 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 360104001069 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 360104001070 Ligand Binding Site [chemical binding]; other site 360104001071 hydroxylamine reductase; Provisional; Region: PRK12310 360104001072 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 360104001073 ACS interaction site; other site 360104001074 CODH interaction site; other site 360104001075 metal cluster binding site [ion binding]; other site 360104001076 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 360104001077 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 360104001078 active site 360104001079 HIGH motif; other site 360104001080 KMSKS motif; other site 360104001081 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 360104001082 tRNA binding surface [nucleotide binding]; other site 360104001083 anticodon binding site; other site 360104001084 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 360104001085 putative tRNA-binding site [nucleotide binding]; other site 360104001086 dimer interface [polypeptide binding]; other site 360104001087 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 360104001088 active site 360104001089 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 360104001090 Walker A motif; other site 360104001091 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 catalyze...; Region: LT_GEWL; cd00254 360104001092 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360104001093 catalytic residue [active] 360104001094 YGGT family; Region: YGGT; cl00508 360104001095 glutamylglutaminyl-tRNA synthetase; Provisional; Region: PRK12410 360104001096 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360104001097 active site 360104001098 HIGH motif; other site 360104001099 nucleotide binding site [chemical binding]; other site 360104001100 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360104001101 active site 360104001102 KMSKS motif; other site 360104001103 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 360104001104 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 360104001105 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 360104001106 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 360104001107 ligand binding site [chemical binding]; other site 360104001108 flexible hinge region; other site 360104001109 Helix-turn-helix domains; Region: HTH; cl00088 360104001110 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 360104001111 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 360104001112 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 360104001113 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 360104001114 putative active site [active] 360104001115 putative metal binding site [ion binding]; other site 360104001116 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 360104001117 GMP synthase; Reviewed; Region: guaA; PRK00074 360104001118 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 360104001119 AMP/PPi binding site [chemical binding]; other site 360104001120 candidate oxyanion hole; other site 360104001121 catalytic triad [active] 360104001122 potential glutamine specificity residues [chemical binding]; other site 360104001123 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 360104001124 ATP Binding subdomain [chemical binding]; other site 360104001125 Ligand Binding sites [chemical binding]; other site 360104001126 Dimerization subdomain; other site 360104001127 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 360104001128 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; cl15357 360104001129 transmembrane helices; other site 360104001130 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 360104001131 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 360104001132 GIY-YIG motif/motif A; other site 360104001133 active site 360104001134 catalytic site [active] 360104001135 putative DNA binding site [nucleotide binding]; other site 360104001136 metal binding site [ion binding]; metal-binding site 360104001137 UvrB/uvrC motif; Region: UVR; pfam02151 360104001138 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 360104001139 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 360104001140 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 360104001141 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 360104001142 dimer interface [polypeptide binding]; other site 360104001143 motif 1; other site 360104001144 active site 360104001145 motif 2; other site 360104001146 motif 3; other site 360104001147 LytB protein; Region: LYTB; cl00507 360104001148 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 360104001149 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 360104001150 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 360104001151 RNA binding site [nucleotide binding]; other site 360104001152 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 consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 360104001153 RNA binding site [nucleotide binding]; other site 360104001154 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 360104001155 RNA binding site [nucleotide binding]; other site 360104001156 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 360104001157 RNA binding site [nucleotide binding]; other site 360104001158 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 360104001159 RNA binding site [nucleotide binding]; other site 360104001160 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 360104001161 RNA binding site [nucleotide binding]; other site 360104001162 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 360104001163 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104001164 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 360104001165 putative L-serine binding site [chemical binding]; other site 360104001166 elongation factor P; Validated; Region: PRK00529 360104001167 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 360104001168 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 360104001169 RNA binding site [nucleotide binding]; other site 360104001170 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 360104001171 RNA binding site [nucleotide binding]; other site 360104001172 Domain of unknown function (DUF4304); Region: DUF4304; pfam14137 360104001173 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 360104001174 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104001175 ATP binding site [chemical binding]; other site 360104001176 substrate interface [chemical binding]; other site 360104001177 Survival protein SurE; Region: SurE; cl00448 360104001178 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 360104001179 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 360104001180 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 360104001181 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 360104001182 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 360104001183 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 360104001184 putative active site [active] 360104001185 putative metal binding site [ion binding]; other site 360104001186 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 360104001187 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 360104001188 Response regulator receiver domain; Region: Response_reg; pfam00072 360104001189 active site 360104001190 phosphorylation site [posttranslational modification] 360104001191 intermolecular recognition site; other site 360104001192 dimerization interface [polypeptide binding]; other site 360104001193 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 360104001194 putative binding surface; other site 360104001195 active site 360104001196 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 360104001197 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 360104001198 ATP binding site [chemical binding]; other site 360104001199 Mg2+ binding site [ion binding]; other site 360104001200 G-X-G motif; other site 360104001201 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 360104001202 Response regulator receiver domain; Region: Response_reg; pfam00072 360104001203 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 360104001204 active site 360104001205 phosphorylation site [posttranslational modification] 360104001206 intermolecular recognition site; other site 360104001207 dimerization interface [polypeptide binding]; other site 360104001208 phosphoserine phosphatase SerB; Region: serB; TIGR00338 360104001209 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 360104001210 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 360104001211 motif II; other site 360104001212 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; cl09108 360104001213 transaldolase; Provisional; Region: PRK03903 360104001214 catalytic residue [active] 360104001215 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 360104001216 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104001217 Walker A motif; other site 360104001218 ATP binding site [chemical binding]; other site 360104001219 Walker B motif; other site 360104001220 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 360104001221 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 360104001222 5S rRNA interface [nucleotide binding]; other site 360104001223 CTC domain interface [polypeptide binding]; other site 360104001224 L16 interface [polypeptide binding]; other site 360104001225 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 360104001226 putative active site [active] 360104001227 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 360104001228 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 360104001229 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 360104001230 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 360104001231 active site 360104001232 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360104001233 substrate binding site [chemical binding]; other site 360104001234 catalytic residues [active] 360104001235 dimer interface [polypeptide binding]; other site 360104001236 Chorismate mutase type II; Region: CM_2; cl00693 360104001237 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 360104001238 Prephenate dehydratase; Region: PDT; pfam00800 360104001239 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 360104001240 putative L-Phe binding site [chemical binding]; other site 360104001241 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 360104001242 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 360104001243 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104001244 homodimer interface [polypeptide binding]; other site 360104001245 catalytic residue [active] 360104001246 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 360104001247 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 360104001248 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 360104001249 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 360104001250 FliG C-terminal domain; Region: FliG_C; pfam01706 360104001251 flagellar assembly protein H; Validated; Region: fliH; PRK06669 360104001252 Flagellar assembly protein FliH; Region: FliH; pfam02108 360104001253 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 360104001254 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 360104001255 TPP-binding site; other site 360104001256 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 360104001257 PYR/PP interface [polypeptide binding]; other site 360104001258 dimer interface [polypeptide binding]; other site 360104001259 TPP binding site [chemical binding]; other site 360104001260 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 360104001261 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 360104001262 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 360104001263 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360104001264 catalytic residue [active] 360104001265 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 360104001266 S-adenosylmethionine binding site [chemical binding]; other site 360104001267 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 360104001268 Predicted regulatory domain of a methyltransferase [General function prediction only]; Region: COG4797 360104001269 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 360104001270 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 360104001271 chorismate binding enzyme; Region: Chorismate_bind; cl10555 360104001272 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 360104001273 GTP-binding protein YchF; Reviewed; Region: PRK09601 360104001274 YchF GTPase; Region: YchF; cd01900 360104001275 G1 box; other site 360104001276 GTP/Mg2+ binding site [chemical binding]; other site 360104001277 Switch I region; other site 360104001278 G2 box; other site 360104001279 Switch II region; other site 360104001280 G3 box; other site 360104001281 G4 box; other site 360104001282 G5 box; other site 360104001283 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 360104001284 multifunctional aminopeptidase A; Provisional; Region: PRK00913 360104001285 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 360104001286 interface (dimer of trimers) [polypeptide binding]; other site 360104001287 Substrate-binding/catalytic site; other site 360104001288 Zn-binding sites [ion binding]; other site 360104001289 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 360104001290 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 360104001291 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360104001292 active site 360104001293 Protein of unknown function (DUF972); Region: DUF972; pfam06156 360104001294 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 360104001295 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 360104001296 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 360104001297 active site 360104001298 putative substrate binding region [chemical binding]; other site 360104001299 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 360104001300 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 360104001301 Catalytic site [active] 360104001302 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 360104001303 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14191 360104001304 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 360104001305 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 360104001306 homodimer interface [polypeptide binding]; other site 360104001307 NADP binding site [chemical binding]; other site 360104001308 substrate binding site [chemical binding]; other site 360104001309 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 360104001310 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 360104001311 inhibitor-cofactor binding pocket; inhibition site 360104001312 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104001313 catalytic residue [active] 360104001314 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 360104001315 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 360104001316 putative substrate translocation pore; other site 360104001317 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 360104001318 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 360104001319 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 360104001320 Cache domain; Region: Cache_2; cl07034 360104001321 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 360104001322 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 360104001323 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360104001324 dimer interface [polypeptide binding]; other site 360104001325 putative CheW interface [polypeptide binding]; other site 360104001326 CheB methylesterase; Region: CheB_methylest; pfam01339 360104001327 DNA gyrase subunit A; Validated; Region: PRK05560 360104001328 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 in DNA...; Region: TOP4c; cd00187 360104001329 CAP-like domain; other site 360104001330 active site 360104001331 primary dimer interface [polypeptide binding]; other site 360104001332 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360104001333 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360104001334 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360104001335 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360104001336 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 360104001337 Response regulator receiver domain; Region: Response_reg; pfam00072 360104001338 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 360104001339 active site 360104001340 phosphorylation site [posttranslational modification] 360104001341 intermolecular recognition site; other site 360104001342 dimerization interface [polypeptide binding]; other site 360104001343 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 360104001344 Walker A motif; other site 360104001345 ATP binding site [chemical binding]; other site 360104001346 Walker B motif; other site 360104001347 arginine finger; other site 360104001348 Predicted transcriptional regulator [Transcription]; Region: COG1959 360104001349 Helix-turn-helix domains; Region: HTH; cl00088 360104001350 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104001351 active site 360104001352 Cupin domain; Region: Cupin_2; cl09118 360104001353 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 360104001354 Cation efflux family; Region: Cation_efflux; cl00316 360104001355 GTP-binding protein LepA; Provisional; Region: PRK05433 360104001356 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 360104001357 G1 box; other site 360104001358 putative GEF interaction site [polypeptide binding]; other site 360104001359 GTP/Mg2+ binding site [chemical binding]; other site 360104001360 Switch I region; other site 360104001361 G2 box; other site 360104001362 G3 box; other site 360104001363 Switch II region; other site 360104001364 G4 box; other site 360104001365 G5 box; other site 360104001366 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 360104001367 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 360104001368 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 360104001369 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 360104001370 active site 1 [active] 360104001371 dimer interface [polypeptide binding]; other site 360104001372 hexamer interface [polypeptide binding]; other site 360104001373 active site 2 [active] 360104001374 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 360104001375 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 360104001376 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360104001377 active site 360104001378 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 360104001379 structural tetrad; other site 360104001380 ferredoxin-type protein; Provisional; Region: PRK10194 360104001381 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 360104001382 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 360104001383 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360104001384 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360104001385 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 360104001386 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 360104001387 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 360104001388 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 360104001389 molybdopterin cofactor binding site; other site 360104001390 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 360104001391 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 360104001392 molybdopterin cofactor binding site; other site 360104001393 Cache domain; Region: Cache_1; pfam02743 360104001394 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 360104001395 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360104001396 dimer interface [polypeptide binding]; other site 360104001397 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 360104001398 putative CheW interface [polypeptide binding]; other site 360104001399 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 360104001400 Cu(I) binding site [ion binding]; other site 360104001401 Protein of unknown function (DUF461); Region: DUF461; cl01071 360104001402 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 360104001403 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 360104001404 alanine racemase; Reviewed; Region: alr; PRK00053 360104001405 active site 360104001406 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360104001407 dimer interface [polypeptide binding]; other site 360104001408 substrate binding site [chemical binding]; other site 360104001409 catalytic residues [active] 360104001410 Peptidase family M48; Region: Peptidase_M48; cl12018 360104001411 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; cl15754 360104001412 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 360104001413 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 360104001414 dimerization interface [polypeptide binding]; other site 360104001415 active site 360104001416 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 360104001417 dimer interface [polypeptide binding]; other site 360104001418 active site 360104001419 Schiff base residues; other site 360104001420 ornithine carbamoyltransferase; Provisional; Region: PRK00779 360104001421 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 360104001422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104001423 Protein of unknown function (DUF2603); Region: DUF2603; pfam10788 360104001424 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 360104001425 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 360104001426 FeS/SAM binding site; other site 360104001427 HemN C-terminal domain; Region: HemN_C; pfam06969 360104001428 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 360104001429 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 360104001430 biofilm formation regulator HmsP; Provisional; Region: PRK11829 360104001431 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104001432 metal binding site [ion binding]; metal-binding site 360104001433 active site 360104001434 I-site; other site 360104001435 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 360104001436 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 bacteriocins; Region: Peptidase_C39_likeD; cd02421 360104001437 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 360104001438 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 360104001439 ABC-type bacteriocin exporters. Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two...; Region: ABCC_bacteriocin_exporters; cd03245 360104001440 Walker A/P-loop; other site 360104001441 ATP binding site [chemical binding]; other site 360104001442 Q-loop/lid; other site 360104001443 ABC transporter signature motif; other site 360104001444 Walker B; other site 360104001445 D-loop; other site 360104001446 H-loop/switch region; other site 360104001447 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 360104001448 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 360104001449 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 360104001450 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 360104001451 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 360104001452 dimerization interface [polypeptide binding]; other site 360104001453 DNA binding residues [nucleotide binding] 360104001454 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 360104001455 elongation factor Tu; Reviewed; Region: PRK00049 360104001456 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 360104001457 G1 box; other site 360104001458 GEF interaction site [polypeptide binding]; other site 360104001459 GTP/Mg2+ binding site [chemical binding]; other site 360104001460 Switch I region; other site 360104001461 G2 box; other site 360104001462 G3 box; other site 360104001463 Switch II region; other site 360104001464 G4 box; other site 360104001465 G5 box; other site 360104001466 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 360104001467 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 360104001468 Antibiotic Binding Site [chemical binding]; other site 360104001469 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 360104001470 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 360104001471 putative homodimer interface [polypeptide binding]; other site 360104001472 KOW motif; Region: KOW; cl00354 360104001473 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 360104001474 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 360104001475 23S rRNA interface [nucleotide binding]; other site 360104001476 L7/L12 interface [polypeptide binding]; other site 360104001477 putative thiostrepton binding site; other site 360104001478 L25 interface [polypeptide binding]; other site 360104001479 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 360104001480 mRNA/rRNA interface [nucleotide binding]; other site 360104001481 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 360104001482 23S rRNA interface [nucleotide binding]; other site 360104001483 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 360104001484 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 360104001485 L11 interface [polypeptide binding]; other site 360104001486 putative EF-Tu interaction site [polypeptide binding]; other site 360104001487 putative EF-G interaction site [polypeptide binding]; other site 360104001488 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; cl04593 360104001489 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 360104001490 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 360104001491 RPB11 interaction site [polypeptide binding]; other site 360104001492 RPB12 interaction site [polypeptide binding]; other site 360104001493 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 360104001494 RPB3 interaction site [polypeptide binding]; other site 360104001495 RPB1 interaction site [polypeptide binding]; other site 360104001496 RPB11 interaction site [polypeptide binding]; other site 360104001497 RPB10 interaction site [polypeptide binding]; other site 360104001498 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 360104001499 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 360104001500 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 360104001501 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 360104001502 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 360104001503 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 360104001504 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 360104001505 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 360104001506 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional; Region: PRK14844 360104001507 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 360104001508 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 360104001509 DNA binding site [nucleotide binding] 360104001510 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 360104001511 DoxX; Region: DoxX; cl00976 360104001512 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 360104001513 isoaspartyl dipeptidase; Provisional; Region: PRK10657 360104001514 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 360104001515 active site 360104001516 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 360104001517 S17 interaction site [polypeptide binding]; other site 360104001518 S8 interaction site; other site 360104001519 16S rRNA interaction site [nucleotide binding]; other site 360104001520 streptomycin interaction site [chemical binding]; other site 360104001521 23S rRNA interaction site [nucleotide binding]; other site 360104001522 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 360104001523 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 360104001524 Campylobacter major outer membrane protein; Region: Campylo_MOMP; pfam05538 360104001525 Cytochrome c; Region: Cytochrom_C; cl11414 360104001526 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 360104001527 ResB-like family; Region: ResB; pfam05140 360104001528 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 360104001529 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 360104001530 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 360104001531 tetramer interfaces [polypeptide binding]; other site 360104001532 binuclear metal-binding site [ion binding]; other site 360104001533 ATP sulfurylase (sulfate adenylyltransferase) [Inorganic ion transport and metabolism]; Region: MET3; COG2046 360104001534 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360104001535 active site 360104001536 HIGH motif; other site 360104001537 nucleotide binding site [chemical binding]; other site 360104001538 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 360104001539 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 360104001540 active site 360104001541 phosphorylation site [posttranslational modification] 360104001542 intermolecular recognition site; other site 360104001543 dimerization interface [polypeptide binding]; other site 360104001544 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 360104001545 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 360104001546 substrate binding site; other site 360104001547 dimer interface; other site 360104001548 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 360104001549 homotrimer interaction site [polypeptide binding]; other site 360104001550 zinc binding site [ion binding]; other site 360104001551 CDP-binding sites; other site 360104001552 ThiC family; Region: ThiC; cl08031 360104001553 antiporter inner membrane protein; Provisional; Region: PRK11670 360104001554 Domain of unknown function DUF59; Region: DUF59; cl00941 360104001555 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 360104001556 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 360104001557 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 360104001558 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 360104001559 Tetrahydrodipicolinate N-succinyltransferase [Amino acid transport and metabolism]; Region: DapD; COG2171 360104001560 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 360104001561 putative trimer interface [polypeptide binding]; other site 360104001562 putative CoA binding site [chemical binding]; other site 360104001563 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 360104001564 conserved cys residue [active] 360104001565 TolB amino-terminal domain; Region: TolB_N; cl00639 360104001566 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 360104001567 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 360104001568 glutaminase active site [active] 360104001569 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 360104001570 dimer interface [polypeptide binding]; other site 360104001571 active site 360104001572 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 360104001573 dimer interface [polypeptide binding]; other site 360104001574 active site 360104001575 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 360104001576 metal binding triad; other site 360104001577 UTP:GlnB (protein PII) uridylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: GlnD; COG2844 360104001578 ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; Region: ACT_UUR-ACR-like; cd04873 360104001579 hypothetical protein; Provisional; Region: PRK08444 360104001580 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 360104001581 FeS/SAM binding site; other site 360104001582 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 360104001583 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360104001584 active site 360104001585 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 360104001586 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 360104001587 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 360104001588 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 360104001589 active site 360104001590 catalytic nucleophile [active] 360104001591 dimer interface [polypeptide binding]; other site 360104001592 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 360104001593 HSP70 interaction site [polypeptide binding]; other site 360104001594 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 360104001595 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 360104001596 dimerization interface 3.5A [polypeptide binding]; other site 360104001597 active site 360104001598 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 360104001599 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 360104001600 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 360104001601 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 360104001602 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 360104001603 catalytic residue [active] 360104001604 putative FPP diphosphate binding site; other site 360104001605 putative FPP binding hydrophobic cleft; other site 360104001606 dimer interface [polypeptide binding]; other site 360104001607 putative IPP diphosphate binding site; other site 360104001608 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14359 360104001609 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 360104001610 Substrate binding site; other site 360104001611 Mg++ binding site; other site 360104001612 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 360104001613 active site 360104001614 substrate binding site [chemical binding]; other site 360104001615 CoA binding site [chemical binding]; other site 360104001616 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 360104001617 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360104001618 ligand binding site [chemical binding]; other site 360104001619 FliP family; Region: FliP; cl00593 360104001620 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 360104001621 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 360104001622 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 360104001623 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 360104001624 Protein export membrane protein; Region: SecD_SecF; cl14618 360104001625 Outer membrane efflux protein; Region: OEP; pfam02321 360104001626 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 360104001627 replicative DNA helicase; Provisional; Region: PRK08506 360104001628 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 360104001629 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 360104001630 Walker A motif; other site 360104001631 ATP binding site [chemical binding]; other site 360104001632 Walker B motif; other site 360104001633 DNA binding loops [nucleotide binding] 360104001634 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 360104001635 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 360104001636 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 360104001637 primosome assembly protein PriA; Validated; Region: PRK05580 360104001638 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 360104001639 ATP binding site [chemical binding]; other site 360104001640 putative Mg++ binding site [ion binding]; other site 360104001641 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104001642 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 360104001643 general secretion pathway protein G; Region: typeII_sec_gspG; TIGR01710 360104001644 excinuclease ABC subunit B; Provisional; Region: PRK05298 360104001645 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 360104001646 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 360104001647 ATP binding site [chemical binding]; other site 360104001648 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 360104001649 nucleotide binding region [chemical binding]; other site 360104001650 ATP-binding site [chemical binding]; other site 360104001651 Ultra-violet resistance protein B; Region: UvrB; pfam12344 360104001652 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 360104001653 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 360104001654 Major Facilitator Superfamily; Region: MFS_1; pfam07690 360104001655 putative substrate translocation pore; other site 360104001656 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 360104001657 AsmA-like C-terminal region; Region: AsmA_2; cl15864 360104001658 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 360104001659 oligomerisation interface [polypeptide binding]; other site 360104001660 mobile loop; other site 360104001661 roof hairpin; other site 360104001662 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 360104001663 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 360104001664 ring oligomerisation interface [polypeptide binding]; other site 360104001665 ATP/Mg binding site [chemical binding]; other site 360104001666 stacking interactions; other site 360104001667 hinge regions; other site 360104001668 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 360104001669 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 360104001670 active site 360104001671 substrate binding site [chemical binding]; other site 360104001672 metal binding site [ion binding]; metal-binding site 360104001673 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 360104001674 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 360104001675 substrate binding pocket [chemical binding]; other site 360104001676 membrane-bound complex binding site; other site 360104001677 hinge residues; other site 360104001678 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360104001679 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 360104001680 Walker A/P-loop; other site 360104001681 ATP binding site [chemical binding]; other site 360104001682 Q-loop/lid; other site 360104001683 ABC transporter signature motif; other site 360104001684 Walker B; other site 360104001685 D-loop; other site 360104001686 H-loop/switch region; other site 360104001687 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 360104001688 dimer interface [polypeptide binding]; other site 360104001689 conserved gate region; other site 360104001690 ABC-ATPase subunit interface; other site 360104001691 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 360104001692 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 360104001693 dimer interface [polypeptide binding]; other site 360104001694 conserved gate region; other site 360104001695 putative PBP binding loops; other site 360104001696 ABC-ATPase subunit interface; other site 360104001697 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 360104001698 agmatine deiminase; Region: agmatine_aguA; TIGR03380 360104001699 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 360104001700 N-carbamolyputrescine amidase; Region: PLN02747 360104001701 putative active site; other site 360104001702 catalytic triad [active] 360104001703 putative dimer interface [polypeptide binding]; other site 360104001704 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104001705 ABC transporter signature motif; other site 360104001706 Walker B; other site 360104001707 D-loop; other site 360104001708 H-loop/switch region; other site 360104001709 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 360104001710 NMT1-like family; Region: NMT1_2; cl15260 360104001711 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 360104001712 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 360104001713 DctM-like transporters; Region: DctM; pfam06808 360104001714 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360104001715 Protein of unknown function DUF45; Region: DUF45; cl00636 360104001716 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 360104001717 MatE; Region: MatE; cl10513 360104001718 MatE; Region: MatE; cl10513 360104001719 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 360104001720 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104001721 Walker A/P-loop; other site 360104001722 ATP binding site [chemical binding]; other site 360104001723 Q-loop/lid; other site 360104001724 ABC transporter signature motif; other site 360104001725 Walker B; other site 360104001726 D-loop; other site 360104001727 H-loop/switch region; other site 360104001728 ABC transporter; Region: ABC_tran_2; pfam12848 360104001729 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 360104001730 DKNYY family; Region: DKNYY; pfam13644 360104001731 DKNYY family; Region: DKNYY; pfam13644 360104001732 BCCT family transporter; Region: BCCT; cl00569 360104001733 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 360104001734 Peptidase family M48; Region: Peptidase_M48; cl12018 360104001735 Uncharacterized conserved protein [Function unknown]; Region: COG2966 360104001736 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 360104001737 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 360104001738 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 360104001739 active site 360104001740 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 360104001741 ligand binding site [chemical binding]; other site 360104001742 active site 360104001743 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 360104001744 Ribonuclease P; Region: Ribonuclease_P; cl00457 360104001745 Haemolytic domain; Region: Haemolytic; cl00506 360104001746 membrane protein insertase; Provisional; Region: PRK01318 360104001747 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 360104001748 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 360104001749 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 360104001750 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 360104001751 trmE is a tRNA modification GTPase; Region: trmE; cd04164 360104001752 G1 box; other site 360104001753 GTP/Mg2+ binding site [chemical binding]; other site 360104001754 Switch I region; other site 360104001755 G2 box; other site 360104001756 Switch II region; other site 360104001757 G3 box; other site 360104001758 G4 box; other site 360104001759 G5 box; other site 360104001760 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 360104001761 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 360104001762 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 360104001763 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 360104001764 active site 360104001765 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 360104001766 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 360104001767 putative metal binding site [ion binding]; other site 360104001768 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 360104001769 HSP70 interaction site [polypeptide binding]; other site 360104001770 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 360104001771 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 360104001772 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 360104001773 purine monophosphate binding site [chemical binding]; other site 360104001774 dimer interface [polypeptide binding]; other site 360104001775 putative catalytic residues [active] 360104001776 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 360104001777 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 360104001778 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 360104001779 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 360104001780 SelR domain; Region: SelR; pfam01641 360104001781 Domain of unknown function DUF59; Region: DUF59; cl00941 360104001782 cell division protein FtsZ; Validated; Region: PRK09330 360104001783 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 360104001784 nucleotide binding site [chemical binding]; other site 360104001785 SulA interaction site; other site 360104001786 cell division protein FtsA; Region: ftsA; TIGR01174 360104001787 Cell division protein FtsA; Region: FtsA; cl11496 360104001788 Cell division protein FtsA; Region: FtsA; cl11496 360104001789 SurA N-terminal domain; Region: SurA_N_3; cl07813 360104001790 PPIC-type PPIASE domain; Region: Rotamase; cl08278 360104001791 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 360104001792 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 360104001793 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104001794 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 360104001795 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 360104001796 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 360104001797 homodimer interface [polypeptide binding]; other site 360104001798 substrate-cofactor binding pocket; other site 360104001799 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104001800 catalytic residue [active] 360104001801 Protein of unknown function (DUF523); Region: DUF523; cl00733 360104001802 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 360104001803 NLPC_P60 stabilising domain, N term; Region: N_NLPC_P60; pfam12912 360104001804 SH3 domain of the SH3b1 type; Region: SH3_6; pfam12913 360104001805 SH3 domain of SH3b2 type; Region: SH3_7; pfam12914 360104001806 NlpC/P60 family; Region: NLPC_P60; cl11438 360104001807 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 360104001808 AAA domain; Region: AAA_22; pfam13401 360104001809 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104001810 Helicase; Region: Herpes_Helicase; pfam02689 360104001811 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 360104001812 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 360104001813 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 360104001814 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104001815 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 360104001816 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 360104001817 nucleotide binding region [chemical binding]; other site 360104001818 ATP-binding site [chemical binding]; other site 360104001819 SEC-C motif; Region: SEC-C; pfam02810 360104001820 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 360104001821 FtsX-like permease family; Region: FtsX; cl15850 360104001822 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 360104001823 RelB antitoxin; Region: RelB; cl01171 360104001824 putative cation:proton antiport protein; Provisional; Region: PRK10669 360104001825 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 360104001826 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104001827 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 360104001828 DNA binding residues [nucleotide binding] 360104001829 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 360104001830 putative dimer interface [polypeptide binding]; other site 360104001831 chaperone protein DnaJ; Provisional; Region: PRK14299 360104001832 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 360104001833 HSP70 interaction site [polypeptide binding]; other site 360104001834 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 360104001835 substrate binding site [polypeptide binding]; other site 360104001836 dimer interface [polypeptide binding]; other site 360104001837 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 360104001838 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 360104001839 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 360104001840 protein binding site [polypeptide binding]; other site 360104001841 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 360104001842 protein binding site [polypeptide binding]; other site 360104001843 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360104001844 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 360104001845 active site 360104001846 phosphorylation site [posttranslational modification] 360104001847 intermolecular recognition site; other site 360104001848 dimerization interface [polypeptide binding]; other site 360104001849 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 360104001850 DNA binding site [nucleotide binding] 360104001851 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 360104001852 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 360104001853 dimer interface [polypeptide binding]; other site 360104001854 phosphorylation site [posttranslational modification] 360104001855 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 360104001856 ATP binding site [chemical binding]; other site 360104001857 Mg2+ binding site [ion binding]; other site 360104001858 G-X-G motif; other site 360104001859 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 360104001860 metal binding site [ion binding]; metal-binding site 360104001861 nucleotidyl binding site; other site 360104001862 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 360104001863 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 360104001864 homodimer interface [polypeptide binding]; other site 360104001865 substrate-cofactor binding pocket; other site 360104001866 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104001867 catalytic residue [active] 360104001868 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 360104001869 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 360104001870 motif II; other site 360104001871 Domain of unknown function (DUF2018); Region: DUF2018; pfam09442 360104001872 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 360104001873 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 360104001874 tRNA; other site 360104001875 putative tRNA binding site [nucleotide binding]; other site 360104001876 putative NADP binding site [chemical binding]; other site 360104001877 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 360104001878 prolyl-tRNA synthetase; Provisional; Region: PRK09194 360104001879 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 formation of...; Region: ProRS_core_prok; cd00779 360104001880 dimer interface [polypeptide binding]; other site 360104001881 motif 1; other site 360104001882 active site 360104001883 motif 2; other site 360104001884 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 360104001885 putative deacylase active site [active] 360104001886 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 attaches...; Region: class_II_aaRS-like_core; cl00268 360104001887 active site 360104001888 motif 3; other site 360104001889 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 360104001890 anticodon binding site; other site 360104001891 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 360104001892 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 360104001893 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 360104001894 domain interfaces; other site 360104001895 active site 360104001896 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 360104001897 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 360104001898 thiamine monophosphate kinase; Provisional; Region: PRK05731 360104001899 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 360104001900 ATP binding site [chemical binding]; other site 360104001901 dimerization interface [polypeptide binding]; other site 360104001902 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 360104001903 PseudoU_synth_EcTruD: Pseudouridine synthase, TruD family. This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to...; Region: PseudoU_synth_EcTruD; cd02575 360104001904 Permutation of conserved domain; other site 360104001905 active site 360104001906 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 360104001907 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 360104001908 catalytic triad [active] 360104001909 active site nucleophile [active] 360104001910 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 360104001911 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 360104001912 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360104001913 dimer interface [polypeptide binding]; other site 360104001914 putative CheW interface [polypeptide binding]; other site 360104001915 Flagellar protein FliS; Region: FliS; cl00654 360104001916 flagellar capping protein; Provisional; Region: PRK12765 360104001917 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 360104001918 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 360104001919 FlaG protein; Region: FlaG; cl00591 360104001920 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 360104001921 S-adenosylmethionine binding site [chemical binding]; other site 360104001922 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 360104001923 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 360104001924 Rod binding protein; Region: Rod-binding; cl01626 360104001925 Anti-sigma-28 factor, FlgM; Region: FlgM; cl01052 360104001926 FlgN protein; Region: FlgN; cl09176 360104001927 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08471 360104001928 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 360104001929 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 360104001930 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 360104001931 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 360104001932 E-class dimer interface [polypeptide binding]; other site 360104001933 P-class dimer interface [polypeptide binding]; other site 360104001934 active site 360104001935 Cu2+ binding site [ion binding]; other site 360104001936 Zn2+ binding site [ion binding]; other site 360104001937 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 360104001938 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 360104001939 ATP synthase A chain; Region: ATP-synt_A; cl00413 360104001940 Sodium:solute symporter family; Region: SSF; cl00456 360104001941 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 360104001942 Predicted permeases [General function prediction only]; Region: RarD; COG2962 360104001943 EamA-like transporter family; Region: EamA; cl01037 360104001944 Predicted permeases [General function prediction only]; Region: RarD; COG2962 360104001945 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 360104001946 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 360104001947 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360104001948 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 360104001949 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 360104001950 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 360104001951 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 360104001952 S-adenosylmethionine binding site [chemical binding]; other site 360104001953 Flagellin N-methylase; Region: FliB; cl00497 360104001954 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 360104001955 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 360104001956 binding surface 360104001957 TPR motif; other site 360104001958 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 360104001959 nucleotide binding site/active site [active] 360104001960 HIT family signature motif; other site 360104001961 catalytic residue [active] 360104001962 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 360104001963 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 360104001964 active site residue [active] 360104001965 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08527 360104001966 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 360104001967 PYR/PP interface [polypeptide binding]; other site 360104001968 dimer interface [polypeptide binding]; other site 360104001969 TPP binding site [chemical binding]; other site 360104001970 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 360104001971 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 360104001972 TPP-binding site [chemical binding]; other site 360104001973 dimer interface [polypeptide binding]; other site 360104001974 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 360104001975 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 360104001976 putative valine binding site [chemical binding]; other site 360104001977 dimer interface [polypeptide binding]; other site 360104001978 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 360104001979 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 360104001980 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 360104001981 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 360104001982 trimer interface [polypeptide binding]; other site 360104001983 active site 360104001984 UDP-GlcNAc binding site [chemical binding]; other site 360104001985 lipid binding site [chemical binding]; lipid-binding site 360104001986 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 360104001987 putative acyl-acceptor binding pocket; other site 360104001988 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 360104001989 putative active site [active] 360104001990 catalytic triad [active] 360104001991 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 360104001992 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 360104001993 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 360104001994 ATP binding site [chemical binding]; other site 360104001995 active site 360104001996 substrate binding site [chemical binding]; other site 360104001997 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 360104001998 C-terminal peptidase (prc); Region: prc; TIGR00225 360104001999 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 360104002000 protein binding site [polypeptide binding]; other site 360104002001 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 360104002002 Catalytic dyad [active] 360104002003 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 360104002004 Clp amino terminal domain; Region: Clp_N; pfam02861 360104002005 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 360104002006 Walker A motif; other site 360104002007 ATP binding site [chemical binding]; other site 360104002008 Walker B motif; other site 360104002009 arginine finger; other site 360104002010 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 360104002011 Walker A motif; other site 360104002012 ATP binding site [chemical binding]; other site 360104002013 Walker B motif; other site 360104002014 arginine finger; other site 360104002015 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 360104002016 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 360104002017 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 360104002018 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 360104002019 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 360104002020 Permease; Region: Permease; cl00510 360104002021 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360104002022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104002023 Walker A/P-loop; other site 360104002024 ATP binding site [chemical binding]; other site 360104002025 Q-loop/lid; other site 360104002026 ABC transporter signature motif; other site 360104002027 Walker B; other site 360104002028 D-loop; other site 360104002029 H-loop/switch region; other site 360104002030 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 360104002031 mce related protein; Region: MCE; pfam02470 360104002032 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3400 360104002033 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; cl15357 360104002034 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 360104002035 active site 360104002036 dimer interface [polypeptide binding]; other site 360104002037 metal binding site [ion binding]; metal-binding site 360104002038 Mechanosensitive ion channel; Region: MS_channel; pfam00924 360104002039 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 360104002040 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 360104002041 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 360104002042 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 360104002043 Walker A motif; other site 360104002044 ATP binding site [chemical binding]; other site 360104002045 Walker B motif; other site 360104002046 arginine finger; other site 360104002047 Peptidase family M41; Region: Peptidase_M41; pfam01434 360104002048 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 360104002049 MPT binding site; other site 360104002050 trimer interface [polypeptide binding]; other site 360104002051 heat shock protein 90; Provisional; Region: PRK05218 360104002052 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 360104002053 ATP binding site [chemical binding]; other site 360104002054 Mg2+ binding site [ion binding]; other site 360104002055 G-X-G motif; other site 360104002056 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; cl12078 360104002057 Protein of unknown function (DUF465); Region: DUF465; cl01070 360104002058 Ion channel; Region: Ion_trans_2; cl11596 360104002059 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104002060 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 360104002061 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; cl15357 360104002062 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 360104002063 DNA polymerase III subunit epsilon; Provisional; Region: PRK08517 360104002064 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 360104002065 active site 360104002066 catalytic site [active] 360104002067 substrate binding site [chemical binding]; other site 360104002068 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 360104002069 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 360104002070 metal binding site [ion binding]; metal-binding site 360104002071 dimer interface [polypeptide binding]; other site 360104002072 Nucleoside recognition; Region: Gate; cl00486 360104002073 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 360104002074 Nucleoside recognition; Region: Gate; cl00486 360104002075 polyphosphate kinase; Provisional; Region: PRK05443 360104002076 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 360104002077 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 360104002078 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 360104002079 putative domain interface [polypeptide binding]; other site 360104002080 putative active site [active] 360104002081 catalytic site [active] 360104002082 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 360104002083 putative active site [active] 360104002084 catalytic site [active] 360104002085 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 360104002086 dimer interface [polypeptide binding]; other site 360104002087 ADP-ribose binding site [chemical binding]; other site 360104002088 active site 360104002089 nudix motif; other site 360104002090 metal binding site [ion binding]; metal-binding site 360104002091 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 360104002092 MgtE intracellular N domain; Region: MgtE_N; cl15244 360104002093 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 360104002094 Divalent cation transporter; Region: MgtE; cl00786 360104002095 Peptidase family M23; Region: Peptidase_M23; pfam01551 360104002096 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 360104002097 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 360104002098 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 360104002099 active site 360104002100 metal binding site [ion binding]; metal-binding site 360104002101 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 360104002102 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 360104002103 NAD(P) binding site [chemical binding]; other site 360104002104 catalytic residues [active] 360104002105 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 360104002106 dimer interface [polypeptide binding]; other site 360104002107 phosphorylation site [posttranslational modification] 360104002108 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 360104002109 ATP binding site [chemical binding]; other site 360104002110 Mg2+ binding site [ion binding]; other site 360104002111 G-X-G motif; other site 360104002112 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360104002113 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 360104002114 active site 360104002115 phosphorylation site [posttranslational modification] 360104002116 intermolecular recognition site; other site 360104002117 dimerization interface [polypeptide binding]; other site 360104002118 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 360104002119 DNA binding site [nucleotide binding] 360104002120 Membrane transport protein; Region: Mem_trans; cl09117 360104002121 RloB-like protein; Region: RloB; pfam13707 360104002122 AAA domain; Region: AAA_21; pfam13304 360104002123 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 360104002124 Catalytic site [active] 360104002125 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 360104002126 IHF - DNA interface [nucleotide binding]; other site 360104002127 IHF dimer interface [polypeptide binding]; other site 360104002128 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 360104002129 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104002130 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 360104002131 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 360104002132 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 360104002133 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 360104002134 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104002135 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 360104002136 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360104002137 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 360104002138 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 360104002139 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 360104002140 active site 360104002141 Int/Topo IB signature motif; other site 360104002142 DNA binding site [nucleotide binding] 360104002143 GatB domain; Region: GatB_Yqey; cl11497 360104002144 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 360104002145 Phosphate transporter family; Region: PHO4; cl00396 360104002146 Phosphate transporter family; Region: PHO4; cl00396 360104002147 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 360104002148 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 360104002149 ANP binding site [chemical binding]; other site 360104002150 Substrate Binding Site II [chemical binding]; other site 360104002151 Substrate Binding Site I [chemical binding]; other site 360104002152 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 360104002153 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 360104002154 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 360104002155 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 360104002156 active site 360104002157 HslU subunit interaction site [polypeptide binding]; other site 360104002158 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 360104002159 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104002160 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104002161 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104002162 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 360104002163 GTPase Era; Reviewed; Region: era; PRK00089 360104002164 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 360104002165 G1 box; other site 360104002166 GTP/Mg2+ binding site [chemical binding]; other site 360104002167 Switch I region; other site 360104002168 G2 box; other site 360104002169 Switch II region; other site 360104002170 G3 box; other site 360104002171 G4 box; other site 360104002172 G5 box; other site 360104002173 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 360104002174 Secretin and TonB N terminus short domain; Region: STN; cl06624 360104002175 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 360104002176 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 360104002177 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360104002178 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 360104002179 Walker A motif; other site 360104002180 ATP binding site [chemical binding]; other site 360104002181 Walker B motif; other site 360104002182 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 360104002183 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 360104002184 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 360104002185 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 360104002186 Walker A motif; other site 360104002187 ATP binding site [chemical binding]; other site 360104002188 Walker B motif; other site 360104002189 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 360104002190 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 360104002191 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 360104002192 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 360104002193 PAS domain; Region: PAS_9; pfam13426 360104002194 putative active site [active] 360104002195 heme pocket [chemical binding]; other site 360104002196 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360104002197 dimer interface [polypeptide binding]; other site 360104002198 putative CheW interface [polypeptide binding]; other site 360104002199 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 360104002200 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 360104002201 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 360104002202 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 360104002203 Walker A/P-loop; other site 360104002204 ATP binding site [chemical binding]; other site 360104002205 Q-loop/lid; other site 360104002206 ABC transporter signature motif; other site 360104002207 Walker B; other site 360104002208 D-loop; other site 360104002209 H-loop/switch region; other site 360104002210 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 360104002211 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 360104002212 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 360104002213 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 360104002214 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 360104002215 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 360104002216 active site 360104002217 homodimer interface [polypeptide binding]; other site 360104002218 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 360104002219 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 360104002220 NMT1-like family; Region: NMT1_2; cl15260 360104002221 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 360104002222 dimer interface [polypeptide binding]; other site 360104002223 conserved gate region; other site 360104002224 ABC-ATPase subunit interface; other site 360104002225 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 360104002226 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 360104002227 Walker A/P-loop; other site 360104002228 ATP binding site [chemical binding]; other site 360104002229 Q-loop/lid; other site 360104002230 ABC transporter signature motif; other site 360104002231 Walker B; other site 360104002232 D-loop; other site 360104002233 H-loop/switch region; other site 360104002234 NIL domain; Region: NIL; cl09633 360104002235 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104002236 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 360104002237 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360104002238 active site 360104002239 HIGH motif; other site 360104002240 nucleotide binding site [chemical binding]; other site 360104002241 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360104002242 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 360104002243 active site 360104002244 KMSKS motif; other site 360104002245 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 360104002246 tRNA binding surface [nucleotide binding]; other site 360104002247 anticodon binding site; other site 360104002248 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 360104002249 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 360104002250 MG2 domain; Region: A2M_N; pfam01835 360104002251 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 360104002252 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 360104002253 surface patch; other site 360104002254 thioester region; other site 360104002255 specificity defining residues; other site 360104002256 Transglycosylase; Region: Transgly; cl07896 360104002257 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 360104002258 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 360104002259 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 360104002260 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104002261 Family description; Region: UvrD_C_2; cl15862 360104002262 macrolide transporter subunit MacA; Provisional; Region: PRK11578 360104002263 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 360104002264 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 360104002265 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 360104002266 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 360104002267 Walker A/P-loop; other site 360104002268 ATP binding site [chemical binding]; other site 360104002269 Q-loop/lid; other site 360104002270 ABC transporter signature motif; other site 360104002271 Walker B; other site 360104002272 D-loop; other site 360104002273 H-loop/switch region; other site 360104002274 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 360104002275 FtsX-like permease family; Region: FtsX; cl15850 360104002276 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 360104002277 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 360104002278 catalytic core [active] 360104002279 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 360104002280 dinuclear metal binding motif [ion binding]; other site 360104002281 Rhomboid family; Region: Rhomboid; cl11446 360104002282 NlpC/P60 family; Region: NLPC_P60; cl11438 360104002283 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 360104002284 hinge; other site 360104002285 active site 360104002286 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 360104002287 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 360104002288 dimer interface [polypeptide binding]; other site 360104002289 putative functional site; other site 360104002290 putative MPT binding site; other site 360104002291 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK08515 360104002292 SAF domain; Region: SAF; cl00555 360104002293 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 360104002294 Flavoprotein; Region: Flavoprotein; cl08021 360104002295 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 360104002296 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 360104002297 active site 360104002298 (T/H)XGH motif; other site 360104002299 thymidylate kinase; Validated; Region: tmk; PRK00698 360104002300 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 360104002301 TMP-binding site; other site 360104002302 ATP-binding site [chemical binding]; other site 360104002303 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 360104002304 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 ATP-dependent...; Region: HisRS-like_core; cd00773 360104002305 dimer interface [polypeptide binding]; other site 360104002306 motif 1; other site 360104002307 active site 360104002308 motif 2; other site 360104002309 motif 3; other site 360104002310 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 360104002311 anticodon binding site; other site 360104002312 arginine decarboxylase; Provisional; Region: PRK05354 360104002313 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 360104002314 dimer interface [polypeptide binding]; other site 360104002315 active site 360104002316 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360104002317 catalytic residues [active] 360104002318 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 360104002319 aspartate aminotransferase; Provisional; Region: PRK05764 360104002320 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 360104002321 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104002322 homodimer interface [polypeptide binding]; other site 360104002323 catalytic residue [active] 360104002324 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 360104002325 thiS-thiF/thiG interaction site; other site 360104002326 ThiS-like ubiquitin; Region: ThiS-like; pfam14453 360104002327 thiamine biosynthesis protein ThiF; Provisional; Region: PRK08644 360104002328 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 360104002329 putative ATP binding site [chemical binding]; other site 360104002330 putative substrate interface [chemical binding]; other site 360104002331 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 360104002332 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 360104002333 FeS/SAM binding site; other site 360104002334 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 360104002335 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 360104002336 active site 360104002337 thiamine phosphate binding site [chemical binding]; other site 360104002338 pyrophosphate binding site [ion binding]; other site 360104002339 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 360104002340 Cysteine-rich domain; Region: CCG; pfam02754 360104002341 Cysteine-rich domain; Region: CCG; pfam02754 360104002342 Succinate dehydrogenase/fumarate reductase, Fe-S protein subunit [Energy production and conversion]; Region: FrdB; COG0479 360104002343 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 360104002344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104002345 succinate dehydrogenase or fumarate reductase, flavoprotein subunitGram-negative/mitochondrial subgroup; Region: sdhA_frdA_Gneg; TIGR01812 360104002346 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 360104002347 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 360104002348 intersubunit interface [polypeptide binding]; other site 360104002349 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 360104002350 ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea. Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC...; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 360104002351 Walker A/P-loop; other site 360104002352 ATP binding site [chemical binding]; other site 360104002353 Q-loop/lid; other site 360104002354 ABC transporter signature motif; other site 360104002355 Walker B; other site 360104002356 D-loop; other site 360104002357 H-loop/switch region; other site 360104002358 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 360104002359 ABC-ATPase subunit interface; other site 360104002360 dimer interface [polypeptide binding]; other site 360104002361 putative PBP binding regions; other site 360104002362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104002363 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 360104002364 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 360104002365 N-terminal plug; other site 360104002366 ligand-binding site [chemical binding]; other site 360104002367 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 360104002368 2-oxoglutarate ferredoxin oxidoreductase subunit gamma; Validated; Region: PRK08537 360104002369 2-oxoglutarate-acceptor oxidoreductase subunit OorB; Reviewed; Region: oorB; PRK09628 360104002370 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 360104002371 TPP-binding site [chemical binding]; other site 360104002372 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed; Region: oorA; PRK09627 360104002373 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 360104002374 dimer interface [polypeptide binding]; other site 360104002375 PYR/PP interface [polypeptide binding]; other site 360104002376 TPP binding site [chemical binding]; other site 360104002377 substrate binding site [chemical binding]; other site 360104002378 2-oxoglutarate-acceptor oxidoreductase subunit OorD; Reviewed; Region: oorD; PRK09626 360104002379 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 360104002380 malate dehydrogenase; Reviewed; Region: PRK06223 360104002381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104002382 NAD(P) binding site [chemical binding]; other site 360104002383 LDH/MDH dimer interface [polypeptide binding]; other site 360104002384 substrate binding site [chemical binding]; other site 360104002385 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 360104002386 YceG-like family; Region: YceG; pfam02618 360104002387 proteins similar to Escherichia coli yceG; Region: yceG_like; cl00675 360104002388 dimerization interface [polypeptide binding]; other site 360104002389 Protein of unknown function; Region: DUF3971; pfam13116 360104002390 AsmA-like C-terminal region; Region: AsmA_2; cl15864 360104002391 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 360104002392 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 360104002393 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 360104002394 dimerization interface [polypeptide binding]; other site 360104002395 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 360104002396 ATP binding site [chemical binding]; other site 360104002397 Hydrogenase formation hypA family; Region: HypD; cl12072 360104002398 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypD; COG0409 360104002399 HupF/HypC family; Region: HupF_HypC; cl00394 360104002400 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104002401 GDYXXLXY protein; Region: GDYXXLXY; cl02066 360104002402 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 360104002403 nickel responsive regulator; Provisional; Region: PRK00630 360104002404 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 360104002405 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 360104002406 Acylphosphatase; Region: Acylphosphatase; cl00551 360104002407 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 360104002408 HypF finger; Region: zf-HYPF; pfam07503 360104002409 HypF finger; Region: zf-HYPF; pfam07503 360104002410 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 360104002411 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 360104002412 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 360104002413 putative substrate-binding site; other site 360104002414 nickel binding site [ion binding]; other site 360104002415 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 360104002416 hydrogenase (NiFe) small subunit (hydA); Region: hydA; TIGR00391 360104002417 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 360104002418 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 360104002419 Flagellar L-ring protein; Region: FlgH; cl00905 360104002420 phosphate acetyltransferase; Reviewed; Region: PRK05632 360104002421 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 360104002422 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 360104002423 Acetokinase family; Region: Acetate_kinase; cl01029 360104002424 propionate/acetate kinase; Provisional; Region: PRK12379 360104002425 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 360104002426 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 360104002427 active site 360104002428 DNA binding site [nucleotide binding] 360104002429 Int/Topo IB signature motif; other site 360104002430 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 360104002431 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360104002432 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 360104002433 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14601 360104002434 RuvA N terminal domain; Region: RuvA_N; pfam01330 360104002435 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 360104002436 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 360104002437 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 360104002438 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 360104002439 active site 360104002440 HIGH motif; other site 360104002441 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 360104002442 KMSKS motif; other site 360104002443 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 360104002444 tRNA binding surface [nucleotide binding]; other site 360104002445 anticodon binding site; other site 360104002446 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 360104002447 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 360104002448 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104002449 Walker A/P-loop; other site 360104002450 ATP binding site [chemical binding]; other site 360104002451 Q-loop/lid; other site 360104002452 ABC transporter signature motif; other site 360104002453 Walker B; other site 360104002454 D-loop; other site 360104002455 H-loop/switch region; other site 360104002456 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 360104002457 quinone interaction residues [chemical binding]; other site 360104002458 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 360104002459 active site 360104002460 catalytic residues [active] 360104002461 FMN binding site [chemical binding]; other site 360104002462 substrate binding site [chemical binding]; other site 360104002463 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 360104002464 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 360104002465 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 360104002466 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 360104002467 dihydrodipicolinate synthase; Region: dapA; TIGR00674 360104002468 dimer interface [polypeptide binding]; other site 360104002469 active site 360104002470 catalytic residue [active] 360104002471 7-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK08416 360104002472 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104002473 NAD(P) binding site [chemical binding]; other site 360104002474 active site 360104002475 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 360104002476 Domain of unknown function DUF20; Region: UPF0118; pfam01594 360104002477 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 360104002478 RIP metalloprotease RseP; Region: TIGR00054 360104002479 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 360104002480 active site 360104002481 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 360104002482 protein binding site [polypeptide binding]; other site 360104002483 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 360104002484 putative substrate binding region [chemical binding]; other site 360104002485 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 360104002486 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360104002487 catalytic residue [active] 360104002488 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360104002489 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 360104002490 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 360104002491 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 360104002492 phosphodiesterase; Provisional; Region: PRK12704 360104002493 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 360104002494 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 360104002495 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 360104002496 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 360104002497 catalytic residues [active] 360104002498 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 360104002499 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 360104002500 P loop; other site 360104002501 GTP binding site [chemical binding]; other site 360104002502 VanZ like family; Region: VanZ; cl01971 360104002503 DNA repair protein RadA; Provisional; Region: PRK11823 360104002504 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 360104002505 Walker A motif/ATP binding site; other site 360104002506 ATP binding site [chemical binding]; other site 360104002507 Walker B motif; other site 360104002508 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 360104002509 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 360104002510 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 360104002511 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 360104002512 putative deacylase active site [active] 360104002513 Uncharacterized conserved protein [Function unknown]; Region: COG1565 360104002514 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 360104002515 Predicted membrane protein [Function unknown]; Region: COG2860 360104002516 UPF0126 domain; Region: UPF0126; pfam03458 360104002517 UPF0126 domain; Region: UPF0126; pfam03458 360104002518 Family of unknown function (DUF500); Region: DUF500; cl01109 360104002519 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 360104002520 metal binding site 2 [ion binding]; metal-binding site 360104002521 putative DNA binding helix; other site 360104002522 metal binding site 1 [ion binding]; metal-binding site 360104002523 dimer interface [polypeptide binding]; other site 360104002524 structural Zn2+ binding site [ion binding]; other site 360104002525 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 360104002526 dinuclear metal binding motif [ion binding]; other site 360104002527 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 360104002528 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 360104002529 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 360104002530 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 360104002531 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 360104002532 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 360104002533 ModD; Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase) present in some modABC operons in bacteria, which are involved in molybdate transport. In general, QPRTases are part of the de novo synthesis pathway of NAD in both prokaryotes and...; Region: modD_like; cd01573 360104002534 dimerization interface [polypeptide binding]; other site 360104002535 active site 360104002536 Nitrate and nitrite sensing; Region: NIT; pfam08376 360104002537 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360104002538 dimer interface [polypeptide binding]; other site 360104002539 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 360104002540 putative CheW interface [polypeptide binding]; other site 360104002541 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 360104002542 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 360104002543 molybdopterin cofactor binding site [chemical binding]; other site 360104002544 substrate binding site [chemical binding]; other site 360104002545 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_CT_DMSOR-BSOR-TMAOR; cd02793 360104002546 molybdopterin cofactor binding site; other site 360104002547 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 360104002548 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 360104002549 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 360104002550 molybdopterin cofactor binding site [chemical binding]; other site 360104002551 substrate binding site [chemical binding]; other site 360104002552 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_CT_DMSOR-BSOR-TMAOR; cd02793 360104002553 molybdopterin cofactor binding site; other site 360104002554 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 360104002555 EamA-like transporter family; Region: EamA; cl01037 360104002556 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 360104002557 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 360104002558 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 360104002559 threonine dehydratase; Provisional; Region: PRK08526 360104002560 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 360104002561 tetramer interface [polypeptide binding]; other site 360104002562 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104002563 catalytic residue [active] 360104002564 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 360104002565 tRNA (uracil-5-)-methyltransferase; Region: trmA_only; TIGR02143 360104002566 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 360104002567 S-adenosylmethionine binding site [chemical binding]; other site 360104002568 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 360104002569 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 360104002570 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 360104002571 putative NAD(P) binding site [chemical binding]; other site 360104002572 homotetramer interface [polypeptide binding]; other site 360104002573 homodimer interface [polypeptide binding]; other site 360104002574 active site 360104002575 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 360104002576 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 360104002577 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 360104002578 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 360104002579 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 360104002580 substrate binding site [chemical binding]; other site 360104002581 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 360104002582 substrate binding site [chemical binding]; other site 360104002583 ligand binding site [chemical binding]; other site 360104002584 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 360104002585 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 360104002586 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 360104002587 DNA binding site [nucleotide binding] 360104002588 active site 360104002589 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 360104002590 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 360104002591 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 360104002592 ATP binding site [chemical binding]; other site 360104002593 putative Mg++ binding site [ion binding]; other site 360104002594 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 360104002595 Ubiquitin-like proteins; Region: UBQ; cl00155 360104002596 charged pocket; other site 360104002597 hydrophobic patch; other site 360104002598 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 360104002599 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 360104002600 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 360104002601 HsdM N-terminal domain; Region: HsdM_N; pfam12161 360104002602 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104002603 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 360104002604 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 360104002605 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 360104002606 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cl11443 360104002607 CRISPR/Cas system-associated protein Cas8b; Region: Cas8b_I-B; cl09718 360104002608 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 360104002609 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cd09693 360104002610 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 360104002611 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104002612 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 360104002613 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 360104002614 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 360104002615 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 360104002616 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 360104002617 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 360104002618 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 360104002619 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 360104002620 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 360104002621 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 360104002622 RimM N-terminal domain; Region: RimM; pfam01782 360104002623 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK14593 360104002624 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 360104002625 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 360104002626 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 360104002627 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 360104002628 signal recognition particle protein; Provisional; Region: PRK10867 360104002629 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 360104002630 P loop; other site 360104002631 GTP binding site [chemical binding]; other site 360104002632 Signal peptide binding domain; Region: SRP_SPB; pfam02978 360104002633 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 360104002634 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 360104002635 active site 360104002636 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 360104002637 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 360104002638 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 360104002639 Putative zinc ribbon domain; Region: DUF164; pfam02591 360104002640 Uncharacterized conserved protein [Function unknown]; Region: COG0327 360104002641 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 360104002642 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 360104002643 dimer interface [polypeptide binding]; other site 360104002644 motif 1; other site 360104002645 active site 360104002646 motif 2; other site 360104002647 motif 3; other site 360104002648 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 360104002649 Protein of unknown function (DUF3972); Region: DUF3972; pfam13118 360104002650 histidinol-phosphatase; Provisional; Region: PRK07328 360104002651 glutamine synthetase, type I; Region: GlnA; TIGR00653 360104002652 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 360104002653 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 360104002654 DNA polymerase III subunits gamma and tau; Validated; Region: PRK08451 360104002655 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 360104002656 Walker A motif; other site 360104002657 ATP binding site [chemical binding]; other site 360104002658 Walker B motif; other site 360104002659 LysE type translocator; Region: LysE; cl00565 360104002660 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 360104002661 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 360104002662 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 360104002663 metal-binding site [ion binding] 360104002664 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 360104002665 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 360104002666 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 360104002667 YheO-like PAS domain; Region: PAS_6; pfam08348 360104002668 Helix-turn-helix domains; Region: HTH; cl00088 360104002669 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 360104002670 homotrimer interaction site [polypeptide binding]; other site 360104002671 putative active site [active] 360104002672 threonine synthase; Validated; Region: PRK06450 360104002673 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 360104002674 homodimer interface [polypeptide binding]; other site 360104002675 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104002676 catalytic residue [active] 360104002677 transcription termination factor Rho; Provisional; Region: rho; PRK09376 360104002678 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 360104002679 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 360104002680 RNA binding site [nucleotide binding]; other site 360104002681 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 360104002682 multimer interface [polypeptide binding]; other site 360104002683 Walker A motif; other site 360104002684 ATP binding site [chemical binding]; other site 360104002685 Walker B motif; other site 360104002686 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 360104002687 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 360104002688 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360104002689 Coenzyme A binding pocket [chemical binding]; other site 360104002690 transcription elongation factor NusA; Provisional; Region: nusA; PRK12328 360104002691 NusA N-terminal domain; Region: NusA_N; pfam08529 360104002692 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 360104002693 RNA binding site [nucleotide binding]; other site 360104002694 homodimer interface [polypeptide binding]; other site 360104002695 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 360104002696 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 360104002697 G-X-X-G motif; other site 360104002698 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 360104002699 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14339 360104002700 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 360104002701 FeS/SAM binding site; other site 360104002702 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 360104002703 putative acyl-acceptor binding pocket; other site 360104002704 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 360104002705 Helix-turn-helix domains; Region: HTH; cl00088 360104002706 DNA binding site [nucleotide binding] 360104002707 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360104002708 Sel1 repeat; Region: Sel1; cl02723 360104002709 Sel1 repeat; Region: Sel1; cl02723 360104002710 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 360104002711 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 360104002712 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 360104002713 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360104002714 Sel1 repeat; Region: Sel1; cl02723 360104002715 peptide chain release factor 2; Validated; Region: prfB; PRK00578 360104002716 RF-1 domain; Region: RF-1; cl02875 360104002717 RF-1 domain; Region: RF-1; cl02875 360104002718 pantoate--beta-alanine ligase; Region: panC; TIGR00018 360104002719 Pantoate-beta-alanine ligase; Region: PanC; cd00560 360104002720 active site 360104002721 ATP-binding site [chemical binding]; other site 360104002722 pantoate-binding site; other site 360104002723 HXXH motif; other site 360104002724 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 360104002725 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 360104002726 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 360104002727 Ligand Binding Site [chemical binding]; other site 360104002728 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 360104002729 dimer interface [polypeptide binding]; other site 360104002730 active site 360104002731 ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaE; COG2870 360104002732 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 360104002733 putative ribose interaction site [chemical binding]; other site 360104002734 putative ADP binding site [chemical binding]; other site 360104002735 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360104002736 active site 360104002737 nucleotide binding site [chemical binding]; other site 360104002738 HIGH motif; other site 360104002739 KMSKS motif; other site 360104002740 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104002741 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 360104002742 NAD(P) binding site [chemical binding]; other site 360104002743 active site 360104002744 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 360104002745 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 360104002746 active site 360104002747 motif I; other site 360104002748 motif II; other site 360104002749 Cytochrome c; Region: Cytochrom_C; cl11414 360104002750 serine O-acetyltransferase; Region: cysE; TIGR01172 360104002751 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 360104002752 trimer interface [polypeptide binding]; other site 360104002753 active site 360104002754 substrate binding site [chemical binding]; other site 360104002755 CoA binding site [chemical binding]; other site 360104002756 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 360104002757 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 360104002758 dimer interface [polypeptide binding]; other site 360104002759 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104002760 catalytic residue [active] 360104002761 3-methyladenine DNA glycosylase; Provisional; Region: PRK13913 360104002762 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 360104002763 minor groove reading motif; other site 360104002764 helix-hairpin-helix signature motif; other site 360104002765 active site 360104002766 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 360104002767 Walker A motif; other site 360104002768 ATP binding site [chemical binding]; other site 360104002769 Walker B motif; other site 360104002770 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 360104002771 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 360104002772 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 360104002773 ATP binding site [chemical binding]; other site 360104002774 putative Mg++ binding site [ion binding]; other site 360104002775 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 360104002776 nucleotide binding region [chemical binding]; other site 360104002777 ATP-binding site [chemical binding]; other site 360104002778 TRCF domain; Region: TRCF; cl04088 360104002779 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 360104002780 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360104002781 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104002782 metal binding site [ion binding]; metal-binding site 360104002783 active site 360104002784 I-site; other site 360104002785 Lipopolysaccharide-assembly; Region: LptE; cl01125 360104002786 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 360104002787 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 360104002788 HIGH motif; other site 360104002789 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360104002790 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360104002791 active site 360104002792 KMSKS motif; other site 360104002793 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 360104002794 tRNA binding surface [nucleotide binding]; other site 360104002795 YrhC-like protein; Region: YrhC; pfam14143 360104002796 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 360104002797 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 360104002798 Protein export membrane protein; Region: SecD_SecF; cl14618 360104002799 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 360104002800 Protein export membrane protein; Region: SecD_SecF; cl14618 360104002801 Preprotein translocase subunit; Region: YajC; cl00806 360104002802 apolipoprotein N-acyltransferase; Reviewed; Region: PRK12291 360104002803 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 360104002804 active site 360104002805 catalytic triad [active] 360104002806 S-adenosylmethionine synthetase; Validated; Region: PRK05250 360104002807 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 360104002808 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 360104002809 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 360104002810 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 360104002811 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 360104002812 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 360104002813 active site 360104002814 Zn binding site [ion binding]; other site 360104002815 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 360104002816 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104002817 Family description; Region: UvrD_C_2; cl15862 360104002818 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK04099 360104002819 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 360104002820 RNA binding site [nucleotide binding]; other site 360104002821 active site 360104002822 Global regulator protein family; Region: CsrA; cl00670 360104002823 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK04181 360104002824 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 360104002825 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 360104002826 SmpB-tmRNA interface; other site 360104002827 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 360104002828 catalytic residues [active] 360104002829 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 360104002830 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 360104002831 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 360104002832 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 360104002833 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 360104002834 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 360104002835 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 360104002836 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 360104002837 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 360104002838 ferrochelatase; Reviewed; Region: hemH; PRK00035 360104002839 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 360104002840 C-terminal domain interface [polypeptide binding]; other site 360104002841 active site 360104002842 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 360104002843 active site 360104002844 N-terminal domain interface [polypeptide binding]; other site 360104002845 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 360104002846 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104002847 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 360104002848 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 formation of...; Region: AlaRS_core; cd00673 360104002849 motif 1; other site 360104002850 active site 360104002851 motif 2; other site 360104002852 motif 3; other site 360104002853 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 360104002854 DHHA1 domain; Region: DHHA1; pfam02272 360104002855 Maf-like protein; Region: Maf; pfam02545 360104002856 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 360104002857 active site 360104002858 dimer interface [polypeptide binding]; other site 360104002859 Transglycosylase; Region: Transgly; cl07896 360104002860 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 360104002861 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 360104002862 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 360104002863 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 360104002864 Sulfatase; Region: Sulfatase; cl10460 360104002865 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 360104002866 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 360104002867 putative catalytic site [active] 360104002868 putative metal binding site [ion binding]; other site 360104002869 putative phosphate binding site [ion binding]; other site 360104002870 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 360104002871 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 360104002872 active site 360104002873 NTP binding site [chemical binding]; other site 360104002874 metal binding triad [ion binding]; metal-binding site 360104002875 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 360104002876 tartrate dehydrogenase; Provisional; Region: PRK08194 360104002877 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 360104002878 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 360104002879 substrate binding site [chemical binding]; other site 360104002880 Domain of unknown function (DUF4299); Region: DUF4299; pfam14132 360104002881 LysE type translocator; Region: LysE; cl00565 360104002882 Domain of unknown function (DUF1877); Region: DUF1877; pfam08974 360104002883 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 360104002884 active site 360104002885 homodimer interface [polypeptide binding]; other site 360104002886 homotetramer interface [polypeptide binding]; other site 360104002887 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 360104002888 Sel1 repeat; Region: Sel1; cl02723 360104002889 Sel1 repeat; Region: Sel1; cl02723 360104002890 Sel1 repeat; Region: Sel1; cl02723 360104002891 Tetratricopeptide repeat; Region: TPR_12; pfam13424 360104002892 Sel1 repeat; Region: Sel1; cl02723 360104002893 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 360104002894 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 360104002895 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 360104002896 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 360104002897 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 360104002898 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 360104002899 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 360104002900 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 360104002901 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360104002902 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 360104002903 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 360104002904 DNA binding residues [nucleotide binding] 360104002905 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 360104002906 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 360104002907 histidinol dehydrogenase; Region: hisD; TIGR00069 360104002908 NAD binding site [chemical binding]; other site 360104002909 dimerization interface [polypeptide binding]; other site 360104002910 product binding site; other site 360104002911 substrate binding site [chemical binding]; other site 360104002912 zinc binding site [ion binding]; other site 360104002913 catalytic residues [active] 360104002914 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 360104002915 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 360104002916 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360104002917 catalytic residue [active] 360104002918 hypothetical protein; Validated; Region: PRK09039 360104002919 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 360104002920 ligand binding site [chemical binding]; other site 360104002921 AAA domain; Region: AAA_13; pfam13166 360104002922 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 360104002923 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 360104002924 active site 360104002925 intersubunit interface [polypeptide binding]; other site 360104002926 zinc binding site [ion binding]; other site 360104002927 Na+ binding site [ion binding]; other site 360104002928 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 360104002929 PPIC-type PPIASE domain; Region: Rotamase; cl08278 360104002930 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 360104002931 metal-binding site [ion binding] 360104002932 multicopper oxidase; Provisional; Region: PRK10965 360104002933 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 360104002934 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 360104002935 S-adenosylmethionine binding site [chemical binding]; other site 360104002936 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 360104002937 Campylobacter major outer membrane protein; Region: Campylo_MOMP; pfam05538 360104002938 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3399 360104002939 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 360104002940 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 360104002941 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 360104002942 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 360104002943 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 360104002944 DsbD alpha interface [polypeptide binding]; other site 360104002945 catalytic residues [active] 360104002946 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 360104002947 Ligand binding site; other site 360104002948 oligomer interface; other site 360104002949 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 360104002950 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 360104002951 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360104002952 catalytic residue [active] 360104002953 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 360104002954 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 360104002955 inhibitor-cofactor binding pocket; inhibition site 360104002956 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104002957 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 360104002958 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 360104002959 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 360104002960 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 360104002961 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 360104002962 dimer interface [polypeptide binding]; other site 360104002963 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 360104002964 heat-inducible transcription repressor; Provisional; Region: PRK03911 360104002965 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 360104002966 dihydroorotase; Validated; Region: pyrC; PRK09357 360104002967 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 360104002968 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 360104002969 active site 360104002970 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 360104002971 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 360104002972 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104002973 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360104002974 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 360104002975 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 360104002976 Helix-turn-helix domains; Region: HTH; cl00088 360104002977 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 360104002978 16S/18S rRNA binding site [nucleotide binding]; other site 360104002979 S13e-L30e interaction site [polypeptide binding]; other site 360104002980 25S rRNA binding site [nucleotide binding]; other site 360104002981 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 360104002982 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 360104002983 molybdopterin cofactor binding site; other site 360104002984 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 360104002985 molybdopterin cofactor binding site; other site 360104002986 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 360104002987 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 360104002988 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104002989 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 360104002990 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 360104002991 active site 360104002992 Riboflavin kinase; Region: Flavokinase; cl03312 360104002993 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 360104002994 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 360104002995 RNA binding surface [nucleotide binding]; other site 360104002996 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 360104002997 S-adenosylmethionine binding site [chemical binding]; other site 360104002998 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 360104002999 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 360104003000 nucleotide binding pocket [chemical binding]; other site 360104003001 K-X-D-G motif; other site 360104003002 catalytic site [active] 360104003003 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 360104003004 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 360104003005 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 360104003006 Dimer interface [polypeptide binding]; other site 360104003007 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 360104003008 Dihydropteroate synthase and related enzymes [Coenzyme metabolism]; Region: FolP; COG0294 360104003009 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 360104003010 substrate binding pocket [chemical binding]; other site 360104003011 dimer interface [polypeptide binding]; other site 360104003012 inhibitor binding site; inhibition site 360104003013 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104003014 DNA replication regulator; Region: HobA; pfam12163 360104003015 aspartate kinase; Reviewed; Region: PRK06635 360104003016 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 360104003017 putative nucleotide binding site [chemical binding]; other site 360104003018 putative catalytic residues [active] 360104003019 putative Mg ion binding site [ion binding]; other site 360104003020 putative aspartate binding site [chemical binding]; other site 360104003021 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 360104003022 putative allosteric regulatory site; other site 360104003023 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 360104003024 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 360104003025 putative active site [active] 360104003026 Ap4A binding site [chemical binding]; other site 360104003027 nudix motif; other site 360104003028 putative metal binding site [ion binding]; other site 360104003029 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 360104003030 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 360104003031 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 360104003032 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 360104003033 Divergent polysaccharide deacetylase; Region: Polysacc_deac_2; pfam04748 360104003034 ketol-acid reductoisomerase; Provisional; Region: PRK05479 360104003035 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104003036 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 360104003037 HDOD domain; Region: HDOD; pfam08668 360104003038 ribonuclease R; Region: RNase_R; TIGR02063 360104003039 RNB domain; Region: RNB; pfam00773 360104003040 DNA polymerase III subunit delta; Validated; Region: PRK08487 360104003041 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 360104003042 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 360104003043 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 360104003044 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 360104003045 dimer interface [polypeptide binding]; other site 360104003046 ssDNA binding site [nucleotide binding]; other site 360104003047 tetramer (dimer of dimers) interface [polypeptide binding]; other site 360104003048 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 360104003049 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 360104003050 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 360104003051 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 360104003052 Protein of unknown function (DUF1352); Region: DUF1352; pfam07086 360104003053 Predicted GTPase [General function prediction only]; Region: COG0218 360104003054 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 360104003055 G1 box; other site 360104003056 GTP/Mg2+ binding site [chemical binding]; other site 360104003057 Switch I region; other site 360104003058 G2 box; other site 360104003059 G3 box; other site 360104003060 Switch II region; other site 360104003061 G4 box; other site 360104003062 G5 box; other site 360104003063 OstA-like protein; Region: OstA; cl00844 360104003064 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 360104003065 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 360104003066 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 360104003067 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 360104003068 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 360104003069 putative active site pocket [active] 360104003070 4-fold oligomerization interface [polypeptide binding]; other site 360104003071 metal binding residues [ion binding]; metal-binding site 360104003072 3-fold/trimer interface [polypeptide binding]; other site 360104003073 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 360104003074 cell division protein FtsN; Provisional; Region: PRK12757 360104003075 Sporulation related domain; Region: SPOR; cl10051 360104003076 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 catalyze...; Region: LT_GEWL; cd00254 360104003077 N-acetyl-D-glucosamine binding site [chemical binding]; other site 360104003078 catalytic residue [active] 360104003079 autolysin; Reviewed; Region: PRK06347 360104003080 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 360104003081 putative peptidoglycan binding site; other site 360104003082 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 360104003083 putative peptidoglycan binding site; other site 360104003084 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 360104003085 active site 360104003086 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; cl09944 360104003087 Response regulator containing a CheY-like receiver domain and a GGDEF domain [Signal transduction mechanisms]; Region: PleD; COG3706 360104003088 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 360104003089 active site 360104003090 phosphorylation site [posttranslational modification] 360104003091 intermolecular recognition site; other site 360104003092 dimerization interface [polypeptide binding]; other site 360104003093 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104003094 metal binding site [ion binding]; metal-binding site 360104003095 active site 360104003096 I-site; other site 360104003097 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 360104003098 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104003099 Walker A/P-loop; other site 360104003100 ATP binding site [chemical binding]; other site 360104003101 Q-loop/lid; other site 360104003102 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 360104003103 ABC transporter signature motif; other site 360104003104 Walker B; other site 360104003105 D-loop; other site 360104003106 H-loop/switch region; other site 360104003107 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 360104003108 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03708 360104003109 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 360104003110 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 360104003111 dimer interface [polypeptide binding]; other site 360104003112 anticodon binding site; other site 360104003113 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 the...; Region: AspRS_core; cd00777 360104003114 homodimer interface [polypeptide binding]; other site 360104003115 motif 1; other site 360104003116 active site 360104003117 motif 2; other site 360104003118 GAD domain; Region: GAD; pfam02938 360104003119 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 attaches...; Region: class_II_aaRS-like_core; cl00268 360104003120 active site 360104003121 motif 3; other site 360104003122 adenylate kinase; Reviewed; Region: adk; PRK00279 360104003123 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 360104003124 AMP-binding site [chemical binding]; other site 360104003125 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 360104003126 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 360104003127 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 360104003128 dimer interface [polypeptide binding]; other site 360104003129 substrate binding site [chemical binding]; other site 360104003130 metal binding sites [ion binding]; metal-binding site 360104003131 Immunoglobulin A1 protease; Region: Peptidase_S6; pfam02395 360104003132 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 360104003133 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 360104003134 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 360104003135 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 360104003136 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360104003137 Radical SAM superfamily; Region: Radical_SAM; pfam04055 360104003138 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 360104003139 FeS/SAM binding site; other site 360104003140 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360104003141 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 360104003142 dimerization interface [polypeptide binding]; other site 360104003143 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 360104003144 dimer interface [polypeptide binding]; other site 360104003145 phosphorylation site [posttranslational modification] 360104003146 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 360104003147 ATP binding site [chemical binding]; other site 360104003148 Mg2+ binding site [ion binding]; other site 360104003149 G-X-G motif; other site 360104003150 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360104003151 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 360104003152 active site 360104003153 phosphorylation site [posttranslational modification] 360104003154 intermolecular recognition site; other site 360104003155 dimerization interface [polypeptide binding]; other site 360104003156 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 360104003157 DNA binding site [nucleotide binding] 360104003158 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 360104003159 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 360104003160 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 A site; Region: RaiA; cd00552 360104003161 30S subunit binding site; other site 360104003162 FliW protein; Region: FliW; cl00740 360104003163 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 360104003164 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 360104003165 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 360104003166 Walker A motif; other site 360104003167 ATP binding site [chemical binding]; other site 360104003168 Walker B motif; other site 360104003169 arginine finger; other site 360104003170 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 360104003171 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360104003172 dimer interface [polypeptide binding]; other site 360104003173 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 360104003174 putative CheW interface [polypeptide binding]; other site 360104003175 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 360104003176 dimer interface [polypeptide binding]; other site 360104003177 pyridoxal binding site [chemical binding]; other site 360104003178 ATP binding site [chemical binding]; other site 360104003179 Fe-S oxidoreductases [Energy production and conversion]; Region: COG0731 360104003180 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 360104003181 FeS/SAM binding site; other site 360104003182 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 360104003183 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 360104003184 substrate binding site [chemical binding]; other site 360104003185 active site 360104003186 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 360104003187 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 360104003188 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 360104003189 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360104003190 active site 360104003191 Protein of unknown function, DUF488; Region: DUF488; cl01246 360104003192 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 360104003193 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 360104003194 Ligand Binding Site [chemical binding]; other site 360104003195 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 360104003196 flagellar motor switch protein FliY; Validated; Region: PRK08432 360104003197 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 360104003198 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 360104003199 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 360104003200 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 360104003201 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 360104003202 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 360104003203 DNA binding residues [nucleotide binding] 360104003204 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 360104003205 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 360104003206 P-loop; other site 360104003207 ADP binding residues [chemical binding]; other site 360104003208 Switch I; other site 360104003209 Switch II; other site 360104003210 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 360104003211 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104003212 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 360104003213 catalytic center binding site [active] 360104003214 ATP binding site [chemical binding]; other site 360104003215 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 360104003216 methionine aminopeptidase; Provisional; Region: PRK12318 360104003217 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 360104003218 active site 360104003219 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 360104003220 trimer interface [polypeptide binding]; other site 360104003221 active site 360104003222 dimer interface [polypeptide binding]; other site 360104003223 chlorohydrolase; Provisional; Region: PRK08418 360104003224 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 360104003225 active site 360104003226 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 360104003227 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 360104003228 tandem repeat interface [polypeptide binding]; other site 360104003229 oligomer interface [polypeptide binding]; other site 360104003230 active site residues [active] 360104003231 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 360104003232 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 360104003233 oligomerization interface [polypeptide binding]; other site 360104003234 active site 360104003235 metal binding site [ion binding]; metal-binding site 360104003236 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 360104003237 HIT family signature motif; other site 360104003238 catalytic residue [active] 360104003239 Domain of unknown function DUF20; Region: UPF0118; pfam01594 360104003240 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 360104003241 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 360104003242 Walker A motif; other site 360104003243 ATP binding site [chemical binding]; other site 360104003244 Walker B motif; other site 360104003245 arginine finger; other site 360104003246 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 360104003247 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 360104003248 dimer interface [polypeptide binding]; other site 360104003249 phosphorylation site [posttranslational modification] 360104003250 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 360104003251 ATP binding site [chemical binding]; other site 360104003252 Mg2+ binding site [ion binding]; other site 360104003253 G-X-G motif; other site 360104003254 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360104003255 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 360104003256 active site 360104003257 phosphorylation site [posttranslational modification] 360104003258 intermolecular recognition site; other site 360104003259 dimerization interface [polypeptide binding]; other site 360104003260 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 360104003261 DNA binding site [nucleotide binding] 360104003262 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 360104003263 Polysulphide reductase, NrfD; Region: NrfD; cl01295 360104003264 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 360104003265 thiosulfate reductase PhsA; Provisional; Region: PRK15488 360104003266 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 360104003267 putative [Fe4-S4] binding site [ion binding]; other site 360104003268 putative molybdopterin cofactor binding site [chemical binding]; other site 360104003269 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 360104003270 putative molybdopterin cofactor binding site; other site 360104003271 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 360104003272 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 360104003273 Aspartase; Region: Aspartase; cd01357 360104003274 active sites [active] 360104003275 tetramer interface [polypeptide binding]; other site 360104003276 Gram-negative bacterial tonB protein; Region: TonB; cl10048 360104003277 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 360104003278 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 360104003279 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 360104003280 catalytic triad [active] 360104003281 conserved cis-peptide bond; other site 360104003282 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 360104003283 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 360104003284 dimer interface [polypeptide binding]; other site 360104003285 phosphorylation site [posttranslational modification] 360104003286 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 360104003287 ATP binding site [chemical binding]; other site 360104003288 G-X-G motif; other site 360104003289 Archaea bacterial proteins of unknown function; Region: DUF234; pfam03008 360104003290 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 360104003291 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 360104003292 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360104003293 catalytic residue [active] 360104003294 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 360104003295 dimer interface [polypeptide binding]; other site 360104003296 substrate binding site [chemical binding]; other site 360104003297 ATP binding site [chemical binding]; other site 360104003298 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 360104003299 thiamine phosphate binding site [chemical binding]; other site 360104003300 active site 360104003301 pyrophosphate binding site [ion binding]; other site 360104003302 recombination and repair protein; Provisional; Region: PRK10869 360104003303 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104003304 Dynamin family; Region: Dynamin_N; pfam00350 360104003305 G1 box; other site 360104003306 GTP/Mg2+ binding site [chemical binding]; other site 360104003307 G2 box; other site 360104003308 Switch I region; other site 360104003309 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 360104003310 G3 box; other site 360104003311 Switch II region; other site 360104003312 GTP/Mg2+ binding site [chemical binding]; other site 360104003313 G4 box; other site 360104003314 G5 box; other site 360104003315 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 360104003316 Dynamin family; Region: Dynamin_N; pfam00350 360104003317 G1 box; other site 360104003318 GTP/Mg2+ binding site [chemical binding]; other site 360104003319 G2 box; other site 360104003320 Switch I region; other site 360104003321 G3 box; other site 360104003322 Switch II region; other site 360104003323 G4 box; other site 360104003324 G5 box; other site 360104003325 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 360104003326 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 360104003327 dimer interface [polypeptide binding]; other site 360104003328 active site 360104003329 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360104003330 substrate binding site [chemical binding]; other site 360104003331 catalytic residue [active] 360104003332 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 360104003333 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 360104003334 molybdopterin cofactor binding site; other site 360104003335 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 360104003336 molybdopterin cofactor binding site; other site 360104003337 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 360104003338 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 360104003339 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 360104003340 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 360104003341 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 360104003342 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 360104003343 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 360104003344 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360104003345 substrate binding pocket [chemical binding]; other site 360104003346 membrane-bound complex binding site; other site 360104003347 hinge residues; other site 360104003348 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 360104003349 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 360104003350 substrate binding pocket [chemical binding]; other site 360104003351 membrane-bound complex binding site; other site 360104003352 hinge residues; other site 360104003353 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360104003354 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 360104003355 Walker A/P-loop; other site 360104003356 ATP binding site [chemical binding]; other site 360104003357 Q-loop/lid; other site 360104003358 ABC transporter signature motif; other site 360104003359 Walker B; other site 360104003360 D-loop; other site 360104003361 H-loop/switch region; other site 360104003362 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 360104003363 dimer interface [polypeptide binding]; other site 360104003364 conserved gate region; other site 360104003365 putative PBP binding loops; other site 360104003366 ABC-ATPase subunit interface; other site 360104003367 Sodium:solute symporter family; Region: SSF; cl00456 360104003368 UGMP family protein; Validated; Region: PRK09604 360104003369 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 360104003370 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cd00596 360104003371 active site 360104003372 Zn binding site [ion binding]; other site 360104003373 uracil-xanthine permease; Region: ncs2; TIGR00801 360104003374 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 360104003375 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 360104003376 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 360104003377 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 360104003378 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 360104003379 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 360104003380 Restriction endonuclease; Region: Mrr_cat; cl00516 360104003381 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 360104003382 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 360104003383 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 360104003384 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 360104003385 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104003386 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 360104003387 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 360104003388 proximal heme binding site [chemical binding]; other site 360104003389 dimer interface [polypeptide binding]; other site 360104003390 Iron-sulfur protein interface; other site 360104003391 distal heme binding site [chemical binding]; other site 360104003392 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 360104003393 Uncharacterized conserved protein [Function unknown]; Region: COG1739 360104003394 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 360104003395 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 360104003396 active site 360104003397 tetramer interface; other site 360104003398 glucose-6-phosphate isomerase; Provisional; Region: PRK03868 360104003399 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 360104003400 dimer interface [polypeptide binding]; other site 360104003401 active site 360104003402 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 360104003403 dimer interface [polypeptide binding]; other site 360104003404 active site 360104003405 Domain of unknown function (DUF1287); Region: DUF1287; cl01519 360104003406 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 360104003407 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104003408 Walker A/P-loop; other site 360104003409 ATP binding site [chemical binding]; other site 360104003410 Q-loop/lid; other site 360104003411 ABC transporter signature motif; other site 360104003412 Walker B; other site 360104003413 D-loop; other site 360104003414 H-loop/switch region; other site 360104003415 ABC transporter; Region: ABC_tran_2; pfam12848 360104003416 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 360104003417 Domain of unknown function (DUF4272); Region: DUF4272; pfam14094 360104003418 Predicted dehydrogenase [General function prediction only]; Region: COG0579 360104003419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104003420 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 360104003421 N-terminal plug; other site 360104003422 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 360104003423 ligand-binding site [chemical binding]; other site 360104003424 2-isopropylmalate synthase; Validated; Region: PRK00915 360104003425 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 360104003426 active site 360104003427 catalytic residues [active] 360104003428 metal binding site [ion binding]; metal-binding site 360104003429 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 360104003430 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 360104003431 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 360104003432 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 360104003433 FtsH Extracellular; Region: FtsH_ext; pfam06480 360104003434 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 360104003435 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 360104003436 Walker A motif; other site 360104003437 ATP binding site [chemical binding]; other site 360104003438 Walker B motif; other site 360104003439 arginine finger; other site 360104003440 Peptidase family M41; Region: Peptidase_M41; pfam01434 360104003441 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 360104003442 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104003443 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 360104003444 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 360104003445 active site 360104003446 phosphorylation site [posttranslational modification] 360104003447 intermolecular recognition site; other site 360104003448 dimerization interface [polypeptide binding]; other site 360104003449 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 360104003450 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 360104003451 catalytic residues [active] 360104003452 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 360104003453 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 360104003454 putative active site [active] 360104003455 oxyanion strand; other site 360104003456 catalytic triad [active] 360104003457 Cache domain; Region: Cache_1; pfam02743 360104003458 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 360104003459 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 360104003460 NAD(P) binding site [chemical binding]; other site 360104003461 homodimer interface [polypeptide binding]; other site 360104003462 substrate binding site [chemical binding]; other site 360104003463 active site 360104003464 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 360104003465 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 360104003466 inhibitor-cofactor binding pocket; inhibition site 360104003467 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104003468 catalytic residue [active] 360104003469 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 360104003470 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 360104003471 putative trimer interface [polypeptide binding]; other site 360104003472 putative CoA binding site [chemical binding]; other site 360104003473 Bacterial sugar transferase; Region: Bac_transf; cl00939 360104003474 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 360104003475 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003476 putative ADP-binding pocket [chemical binding]; other site 360104003477 Oligosaccharyl transferase STT3 subunit; Region: STT3; pfam02516 360104003478 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 360104003479 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003480 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 360104003481 putative ADP-binding pocket [chemical binding]; other site 360104003482 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003483 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 360104003484 putative ADP-binding pocket [chemical binding]; other site 360104003485 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003486 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 360104003487 putative ADP-binding pocket [chemical binding]; other site 360104003488 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 360104003489 active site 360104003490 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 360104003491 Oligosaccharyl transferase STT3 subunit; Region: STT3; pfam02516 360104003492 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 360104003493 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104003494 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 360104003495 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104003496 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 360104003497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104003498 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 360104003499 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104003500 UDP-glucose-4-epimerase; Region: galE; TIGR01179 360104003501 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 360104003502 NAD binding site [chemical binding]; other site 360104003503 homodimer interface [polypeptide binding]; other site 360104003504 active site 360104003505 substrate binding site [chemical binding]; other site 360104003506 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 360104003507 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 360104003508 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 360104003509 DNA binding site [nucleotide binding] 360104003510 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 360104003511 active site 360104003512 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 360104003513 DNA binding site [nucleotide binding] 360104003514 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 360104003515 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 360104003516 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 360104003517 putative NAD(P) binding site [chemical binding]; other site 360104003518 active site 360104003519 putative substrate binding site [chemical binding]; other site 360104003520 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 360104003521 active site 360104003522 catalytic site [active] 360104003523 substrate binding site [chemical binding]; other site 360104003524 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 360104003525 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 360104003526 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 360104003527 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 360104003528 putative active site [active] 360104003529 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 360104003530 putative acyl-acceptor binding pocket; other site 360104003531 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 360104003532 putative metal binding site; other site 360104003533 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 360104003534 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 360104003535 putative active site [active] 360104003536 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003537 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 360104003538 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 360104003539 putative active site [active] 360104003540 putative metal binding site [ion binding]; other site 360104003541 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 360104003542 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003543 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 360104003544 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003545 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 360104003546 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 360104003547 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 360104003548 putative active site [active] 360104003549 DJ-1 family protein; Region: not_thiJ; TIGR01383 360104003550 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 360104003551 conserved cys residue [active] 360104003552 RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA...; Region: RRM; cd00590 360104003553 RNA/DNA binding site [nucleotide binding]; other site 360104003554 RRM dimerization site [polypeptide binding]; other site 360104003555 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360104003556 active site 360104003557 HIGH motif; other site 360104003558 nucleotide binding site [chemical binding]; other site 360104003559 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360104003560 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 360104003561 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 360104003562 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 360104003563 generic binding surface II; other site 360104003564 generic binding surface I; other site 360104003565 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 360104003566 Ligand Binding Site [chemical binding]; other site 360104003567 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 360104003568 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 360104003569 oligomer interface [polypeptide binding]; other site 360104003570 RNA binding site [nucleotide binding]; other site 360104003571 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 360104003572 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 360104003573 RNase E interface [polypeptide binding]; other site 360104003574 trimer interface [polypeptide binding]; other site 360104003575 active site 360104003576 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 360104003577 putative nucleic acid binding region [nucleotide binding]; other site 360104003578 G-X-X-G motif; other site 360104003579 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 360104003580 RNA binding site [nucleotide binding]; other site 360104003581 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360104003582 active site 360104003583 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 360104003584 Organic solvent tolerance protein; Region: OstA_C; pfam04453 360104003585 RDD family; Region: RDD; cl00746 360104003586 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 360104003587 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 360104003588 ATP-grasp domain; Region: ATP-grasp_4; cl03087 360104003589 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 360104003590 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 360104003591 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 360104003592 active site 360104003593 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 360104003594 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 360104003595 putative substrate translocation pore; other site 360104003596 Cupin domain; Region: Cupin_2; cl09118 360104003597 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 360104003598 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; cl15754 360104003599 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104003600 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 360104003601 active site 360104003602 metal binding site [ion binding]; metal-binding site 360104003603 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 360104003604 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 360104003605 FMN binding site [chemical binding]; other site 360104003606 substrate binding site [chemical binding]; other site 360104003607 putative catalytic residue [active] 360104003608 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 360104003609 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360104003610 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 360104003611 active site 360104003612 HIGH motif; other site 360104003613 dimer interface [polypeptide binding]; other site 360104003614 KMSKS motif; other site 360104003615 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 360104003616 RNA binding surface [nucleotide binding]; other site 360104003617 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 360104003618 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 360104003619 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 360104003620 synthetase active site [active] 360104003621 NTP binding site [chemical binding]; other site 360104003622 metal binding site [ion binding]; metal-binding site 360104003623 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 360104003624 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 360104003625 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 360104003626 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 360104003627 putative nucleotide binding site [chemical binding]; other site 360104003628 uridine monophosphate binding site [chemical binding]; other site 360104003629 homohexameric interface [polypeptide binding]; other site 360104003630 Peptidase family M23; Region: Peptidase_M23; pfam01551 360104003631 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 360104003632 FtsX-like permease family; Region: FtsX; cl15850 360104003633 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360104003634 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 360104003635 Walker A/P-loop; other site 360104003636 ATP binding site [chemical binding]; other site 360104003637 Q-loop/lid; other site 360104003638 ABC transporter signature motif; other site 360104003639 Walker B; other site 360104003640 D-loop; other site 360104003641 H-loop/switch region; other site 360104003642 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 360104003643 S-adenosylmethionine binding site [chemical binding]; other site 360104003644 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; cl00065 360104003645 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 360104003646 Interdomain contacts; other site 360104003647 Cytokine receptor motif; other site 360104003648 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 360104003649 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 360104003650 RNA binding surface [nucleotide binding]; other site 360104003651 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 360104003652 active site 360104003653 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 360104003654 Protein of unknown function DUF2625; Region: DUF2625; cl08177 360104003655 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 360104003656 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 360104003657 NAD binding site [chemical binding]; other site 360104003658 homotetramer interface [polypeptide binding]; other site 360104003659 homodimer interface [polypeptide binding]; other site 360104003660 substrate binding site [chemical binding]; other site 360104003661 active site 360104003662 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 360104003663 substrate binding site [chemical binding]; other site 360104003664 dimer interface [polypeptide binding]; other site 360104003665 catalytic triad [active] 360104003666 Phosphoglycerate kinase; Region: PGK; pfam00162 360104003667 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 360104003668 substrate binding site [chemical binding]; other site 360104003669 hinge regions; other site 360104003670 ADP binding site [chemical binding]; other site 360104003671 catalytic site [active] 360104003672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104003673 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 360104003674 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 360104003675 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 360104003676 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 360104003677 active site 360104003678 (T/H)XGH motif; other site 360104003679 Oligomerisation domain; Region: Oligomerisation; cl00519 360104003680 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 360104003681 Bacterial sugar transferase; Region: Bac_transf; cl00939 360104003682 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 360104003683 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 360104003684 active site 360104003685 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 360104003686 homodimer interface [polypeptide binding]; other site 360104003687 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 360104003688 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003689 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 360104003690 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 360104003691 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 360104003692 dimer interface [polypeptide binding]; other site 360104003693 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 360104003694 active site 360104003695 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 360104003696 Ligand Binding Site [chemical binding]; other site 360104003697 Molecular Tunnel; other site 360104003698 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 360104003699 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 360104003700 extended (e) SDRs; Region: SDR_e; cd08946 360104003701 NAD(P) binding site [chemical binding]; other site 360104003702 active site 360104003703 substrate binding site [chemical binding]; other site 360104003704 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 360104003705 MatE; Region: MatE; cl10513 360104003706 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 360104003707 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 360104003708 active site 360104003709 cosubstrate binding site; other site 360104003710 substrate binding site [chemical binding]; other site 360104003711 catalytic site [active] 360104003712 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 360104003713 active site 360104003714 hexamer interface [polypeptide binding]; other site 360104003715 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 360104003716 carbamoyl phosphate synthase-like protein; Provisional; Region: PRK12767 360104003717 ATP-grasp domain; Region: ATP-grasp_4; cl03087 360104003718 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 360104003719 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 360104003720 active site 360104003721 metal binding site [ion binding]; metal-binding site 360104003722 homotetramer interface [polypeptide binding]; other site 360104003723 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104003724 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 360104003725 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 360104003726 active site 360104003727 dimer interface [polypeptide binding]; other site 360104003728 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 360104003729 Ligand Binding Site [chemical binding]; other site 360104003730 Molecular Tunnel; other site 360104003731 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 360104003732 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 360104003733 inhibitor-cofactor binding pocket; inhibition site 360104003734 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104003735 catalytic residue [active] 360104003736 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104003737 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 360104003738 NAD(P) binding site [chemical binding]; other site 360104003739 active site 360104003740 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 360104003741 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 360104003742 inhibitor-cofactor binding pocket; inhibition site 360104003743 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104003744 catalytic residue [active] 360104003745 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 360104003746 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 360104003747 putative trimer interface [polypeptide binding]; other site 360104003748 putative active site [active] 360104003749 putative substrate binding site [chemical binding]; other site 360104003750 putative CoA binding site [chemical binding]; other site 360104003751 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104003752 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 360104003753 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 360104003754 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 360104003755 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 360104003756 active site 360104003757 HIGH motif; other site 360104003758 KMSK motif region; other site 360104003759 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 360104003760 tRNA binding surface [nucleotide binding]; other site 360104003761 anticodon binding site; other site 360104003762 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 360104003763 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 360104003764 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 360104003765 catalytic site [active] 360104003766 G-X2-G-X-G-K; other site 360104003767 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 360104003768 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360104003769 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 360104003770 Walker A/P-loop; other site 360104003771 ATP binding site [chemical binding]; other site 360104003772 Q-loop/lid; other site 360104003773 ABC transporter signature motif; other site 360104003774 Walker B; other site 360104003775 D-loop; other site 360104003776 H-loop/switch region; other site 360104003777 elongation factor Ts; Provisional; Region: tsf; PRK09377 360104003778 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 360104003779 Elongation factor TS; Region: EF_TS; pfam00889 360104003780 Elongation factor TS; Region: EF_TS; pfam00889 360104003781 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 360104003782 rRNA interaction site [nucleotide binding]; other site 360104003783 S8 interaction site; other site 360104003784 putative laminin-1 binding site; other site 360104003785 isoaspartyl dipeptidase; Provisional; Region: PRK10657 360104003786 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 360104003787 active site 360104003788 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 360104003789 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 360104003790 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 360104003791 Lumazine binding domain; Region: Lum_binding; pfam00677 360104003792 Lumazine binding domain; Region: Lum_binding; pfam00677 360104003793 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 360104003794 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 360104003795 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 360104003796 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK08439 360104003797 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 360104003798 dimer interface [polypeptide binding]; other site 360104003799 active site 360104003800 Phosphopantetheine attachment site; Region: PP-binding; cl09936 360104003801 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 360104003802 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104003803 NAD(P) binding site [chemical binding]; other site 360104003804 active site 360104003805 Sulfatase; Region: Sulfatase; cl10460 360104003806 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 360104003807 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03815 360104003808 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360104003809 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 360104003810 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 360104003811 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 360104003812 active site 360104003813 DNA binding site [nucleotide binding] 360104003814 Int/Topo IB signature motif; other site 360104003815 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; cl15754 360104003816 cofactor binding site; other site 360104003817 DNA binding site [nucleotide binding] 360104003818 substrate interaction site [chemical binding]; other site 360104003819 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 360104003820 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 360104003821 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360104003822 transcriptional repressor DicA; Reviewed; Region: PRK09706 360104003823 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 360104003824 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 360104003825 active site 360104003826 DNA binding site [nucleotide binding] 360104003827 Int/Topo IB signature motif; other site 360104003828 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 360104003829 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 360104003830 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360104003831 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104003832 transcriptional repressor DicA; Reviewed; Region: PRK09706 360104003833 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 360104003834 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 360104003835 active site 360104003836 DNA binding site [nucleotide binding] 360104003837 Int/Topo IB signature motif; other site 360104003838 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 360104003839 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 360104003840 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360104003841 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104003842 C terminus; Region: Baculo_PEP_C; pfam04513 360104003843 transcriptional repressor DicA; Reviewed; Region: PRK09706 360104003844 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 360104003845 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 360104003846 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 360104003847 active site 360104003848 DNA binding site [nucleotide binding] 360104003849 Int/Topo IB signature motif; other site 360104003850 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 360104003851 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 360104003852 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 360104003853 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104003854 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 360104003855 molybdopterin cofactor binding site; other site 360104003856 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 360104003857 molybdopterin cofactor binding site; other site 360104003858 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 360104003859 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 360104003860 dimer interface [polypeptide binding]; other site 360104003861 conserved gate region; other site 360104003862 putative PBP binding loops; other site 360104003863 ABC-ATPase subunit interface; other site 360104003864 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 360104003865 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104003866 Walker A/P-loop; other site 360104003867 ATP binding site [chemical binding]; other site 360104003868 Q-loop/lid; other site 360104003869 ABC transporter signature motif; other site 360104003870 Walker B; other site 360104003871 D-loop; other site 360104003872 H-loop/switch region; other site 360104003873 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 360104003874 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 360104003875 molybdopterin cofactor binding site; other site 360104003876 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 360104003877 molybdopterin cofactor binding site; other site 360104003878 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 360104003879 4Fe-4S binding domain; Region: Fer4; cl02805 360104003880 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 360104003881 Helix-turn-helix domains; Region: HTH; cl00088 360104003882 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 360104003883 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 360104003884 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 360104003885 catalytic residue [active] 360104003886 ATP phosphoribosyltransferase; Region: HisG; cl15266 360104003887 Type III pantothenate kinase; Region: Pan_kinase; cl09130 360104003888 PQQ-like domain; Region: PQQ_2; pfam13360 360104003889 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 360104003890 Colicin V production protein; Region: Colicin_V; cl00567 360104003891 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 360104003892 metal binding site 2 [ion binding]; metal-binding site 360104003893 putative DNA binding helix; other site 360104003894 metal binding site 1 [ion binding]; metal-binding site 360104003895 dimer interface [polypeptide binding]; other site 360104003896 structural Zn2+ binding site [ion binding]; other site 360104003897 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 360104003898 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 360104003899 dimer interface [polypeptide binding]; other site 360104003900 putative anticodon binding site; other site 360104003901 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 360104003902 motif 1; other site 360104003903 active site 360104003904 motif 2; other site 360104003905 motif 3; other site 360104003906 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 360104003907 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 360104003908 dimer interface [polypeptide binding]; other site 360104003909 active site 360104003910 glycine-pyridoxal phosphate binding site [chemical binding]; other site 360104003911 folate binding site [chemical binding]; other site 360104003912 Domain of unknown function (DUF1882); Region: DUF1882; pfam08966 360104003913 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 360104003914 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 360104003915 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 360104003916 shikimate binding site; other site 360104003917 NAD(P) binding site [chemical binding]; other site 360104003918 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 360104003919 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 360104003920 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 360104003921 Walker A/P-loop; other site 360104003922 ATP binding site [chemical binding]; other site 360104003923 Q-loop/lid; other site 360104003924 ABC transporter signature motif; other site 360104003925 Walker B; other site 360104003926 D-loop; other site 360104003927 H-loop/switch region; other site 360104003928 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 360104003929 dimer interface [polypeptide binding]; other site 360104003930 conserved gate region; other site 360104003931 putative PBP binding loops; other site 360104003932 ABC-ATPase subunit interface; other site 360104003933 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 360104003934 Prismane/CO dehydrogenase family; Region: Prismane; pfam03063 360104003935 ACS interaction site; other site 360104003936 CODH interaction site; other site 360104003937 metal cluster binding site [ion binding]; other site 360104003938 NMT1-like family; Region: NMT1_2; cl15260 360104003939 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG1427 360104003940 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 360104003941 RNAase interaction site [polypeptide binding]; other site 360104003942 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 360104003943 active site 360104003944 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360104003945 active site 360104003946 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 360104003947 Malic enzyme, N-terminal domain; Region: malic; pfam00390 360104003948 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 360104003949 putative NAD(P) binding site [chemical binding]; other site 360104003950 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 360104003951 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360104003952 active site 360104003953 HIGH motif; other site 360104003954 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 360104003955 active site 360104003956 KMSKS motif; other site 360104003957 SurA N-terminal domain; Region: SurA_N_3; cl07813 360104003958 PPIC-type PPIASE domain; Region: Rotamase; cl08278 360104003959 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 360104003960 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 360104003961 metal binding site [ion binding]; metal-binding site 360104003962 dimer interface [polypeptide binding]; other site 360104003963 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104003964 metal binding site [ion binding]; metal-binding site 360104003965 active site 360104003966 I-site; other site 360104003967 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 360104003968 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 360104003969 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104003970 Walker A/P-loop; other site 360104003971 ATP binding site [chemical binding]; other site 360104003972 Q-loop/lid; other site 360104003973 ABC transporter signature motif; other site 360104003974 Walker B; other site 360104003975 D-loop; other site 360104003976 H-loop/switch region; other site 360104003977 Smr domain; Region: Smr; cl02619 360104003978 Transposase; Region: DEDD_Tnp_IS110; pfam01548 360104003979 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 360104003980 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 360104003981 Protein of unknown function (DUF419); Region: DUF419; cl15265 360104003982 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104003983 FAD binding domain; Region: FAD_binding_2; pfam00890 360104003984 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 360104003985 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 360104003986 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 360104003987 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 360104003988 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 360104003989 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; cl09108 360104003990 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 key...; Region: CBS_pair_IMPDH; cd04601 360104003991 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 the guanine...; Region: IMPDH; cd00381 360104003992 active site 360104003993 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 360104003994 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 360104003995 active site 360104003996 HIGH motif; other site 360104003997 nucleotide binding site [chemical binding]; other site 360104003998 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 360104003999 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 360104004000 active site 360104004001 KMSKS motif; other site 360104004002 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 360104004003 tRNA binding surface [nucleotide binding]; other site 360104004004 anticodon binding site; other site 360104004005 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 360104004006 Competence-damaged protein; Region: CinA; cl00666 360104004007 Pectate lyase; Region: Pec_lyase_C; cl01593 360104004008 Pectate lyase; Region: Pec_lyase_C; cl01593 360104004009 Predicted exporter [General function prediction only]; Region: COG4258 360104004010 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 360104004011 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 360104004012 active site 360104004013 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 360104004014 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 360104004015 Ligand binding site; other site 360104004016 Putative Catalytic site; other site 360104004017 DXD motif; other site 360104004018 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 360104004019 putative acyl-acceptor binding pocket; other site 360104004020 AMP-binding enzyme; Region: AMP-binding; cl15778 360104004021 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 360104004022 Predicted membrane protein [Function unknown]; Region: COG4648 360104004023 Phosphopantetheine attachment site; Region: PP-binding; cl09936 360104004024 Phosphopantetheine attachment site; Region: PP-binding; cl09936 360104004025 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 360104004026 putative acyl-acceptor binding pocket; other site 360104004027 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 360104004028 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 360104004029 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 360104004030 dimer interface [polypeptide binding]; other site 360104004031 active site 360104004032 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 360104004033 active site 2 [active] 360104004034 active site 1 [active] 360104004035 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 360104004036 dimer interface [polypeptide binding]; other site 360104004037 active site 360104004038 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 360104004039 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 360104004040 Repair protein; Region: Repair_PSII; cl01535 360104004041 LemA family; Region: LemA; cl00742 360104004042 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 360104004043 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 360104004044 dUTPase; Region: dUTPase_2; pfam08761 360104004045 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104004046 metal binding site [ion binding]; metal-binding site 360104004047 active site 360104004048 I-site; other site 360104004049 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 360104004050 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104004051 metal binding site [ion binding]; metal-binding site 360104004052 active site 360104004053 I-site; other site 360104004054 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 360104004055 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 360104004056 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 360104004057 Helix-turn-helix domains; Region: HTH; cl00088 360104004058 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 360104004059 MoaE homodimer interface [polypeptide binding]; other site 360104004060 MoaD interaction [polypeptide binding]; other site 360104004061 active site residues [active] 360104004062 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 360104004063 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 360104004064 dimer interface [polypeptide binding]; other site 360104004065 active site 360104004066 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 360104004067 catalytic residues [active] 360104004068 substrate binding site [chemical binding]; other site 360104004069 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 360104004070 conserved cys residue [active] 360104004071 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 360104004072 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 360104004073 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 360104004074 selenium metabolism protein YedF; Region: selenium_YedF; TIGR03527 360104004075 CPxP motif; other site 360104004076 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 360104004077 dimerization interface [polypeptide binding]; other site 360104004078 ATP binding site [chemical binding]; other site 360104004079 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 360104004080 dimer interface [polypeptide binding]; other site 360104004081 FMN binding site [chemical binding]; other site 360104004082 PAS domain S-box; Region: sensory_box; TIGR00229 360104004083 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 360104004084 putative active site [active] 360104004085 heme pocket [chemical binding]; other site 360104004086 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104004087 metal binding site [ion binding]; metal-binding site 360104004088 active site 360104004089 I-site; other site 360104004090 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 360104004091 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12293 360104004092 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 attaches...; Region: class_II_aaRS-like_core; cl00268 360104004093 motif 1; other site 360104004094 dimer interface [polypeptide binding]; other site 360104004095 active site 360104004096 motif 2; other site 360104004097 motif 3; other site 360104004098 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 360104004099 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 360104004100 GDP-binding site [chemical binding]; other site 360104004101 ACT binding site; other site 360104004102 IMP binding site; other site 360104004103 Flagellar FliJ protein; Region: FliJ; pfam02050 360104004104 MgtE intracellular N domain; Region: MgtE_N; cl15244 360104004105 HI0933-like protein; Region: HI0933_like; pfam03486 360104004106 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 360104004107 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360104004108 ATP-grasp domain; Region: ATP-grasp_4; cl03087 360104004109 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 360104004110 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360104004111 ATP-grasp domain; Region: ATP-grasp_4; cl03087 360104004112 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 360104004113 IMP binding site; other site 360104004114 dimer interface [polypeptide binding]; other site 360104004115 interdomain contacts; other site 360104004116 partial ornithine binding site; other site 360104004117 rod shape-determining protein MreC; Provisional; Region: PRK13922 360104004118 rod shape-determining protein MreC; Region: MreC; pfam04085 360104004119 rod shape-determining protein MreB; Provisional; Region: PRK13927 360104004120 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 360104004121 ATP binding site [chemical binding]; other site 360104004122 gelsolin binding site; other site 360104004123 profilin binding site; other site 360104004124 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 360104004125 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104004126 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 360104004127 Walker A motif; other site 360104004128 ATP binding site [chemical binding]; other site 360104004129 Walker B motif; other site 360104004130 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 360104004131 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 360104004132 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 360104004133 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 360104004134 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 360104004135 Walker A/P-loop; other site 360104004136 ATP binding site [chemical binding]; other site 360104004137 Q-loop/lid; other site 360104004138 ABC transporter signature motif; other site 360104004139 Walker B; other site 360104004140 D-loop; other site 360104004141 H-loop/switch region; other site 360104004142 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360104004143 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 360104004144 Walker A/P-loop; other site 360104004145 ATP binding site [chemical binding]; other site 360104004146 Q-loop/lid; other site 360104004147 ABC transporter signature motif; other site 360104004148 Walker B; other site 360104004149 D-loop; other site 360104004150 H-loop/switch region; other site 360104004151 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 360104004152 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 360104004153 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 360104004154 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 360104004155 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 360104004156 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 360104004157 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 360104004158 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 360104004159 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 360104004160 active site 1 [active] 360104004161 dimer interface [polypeptide binding]; other site 360104004162 hexamer interface [polypeptide binding]; other site 360104004163 active site 2 [active] 360104004164 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 360104004165 catalytic triad [active] 360104004166 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 360104004167 Sulfatase; Region: Sulfatase; cl10460 360104004168 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 360104004169 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 360104004170 catalytic residues [active] 360104004171 hinge region; other site 360104004172 alpha helical domain; other site 360104004173 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 360104004174 homodimer interface [polypeptide binding]; other site 360104004175 substrate-cofactor binding pocket; other site 360104004176 catalytic residue [active] 360104004177 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 360104004178 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 360104004179 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 360104004180 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 360104004181 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 360104004182 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 360104004183 Protein of unknown function (DUF2393); Region: DUF2393; pfam09624 360104004184 biotin carboxylase; Validated; Region: PRK08462 360104004185 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 360104004186 ATP-grasp domain; Region: ATP-grasp_4; cl03087 360104004187 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 360104004188 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 360104004189 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 360104004190 carboxyltransferase (CT) interaction site; other site 360104004191 biotinylation site [posttranslational modification]; other site 360104004192 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 360104004193 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 360104004194 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 360104004195 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 360104004196 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; cl09108 360104004197 active site 360104004198 NMT1-like family; Region: NMT1_2; cl15260 360104004199 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 360104004200 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13904 360104004201 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 360104004202 recombinase A; Provisional; Region: recA; PRK09354 360104004203 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 360104004204 hexamer interface [polypeptide binding]; other site 360104004205 Walker A motif; other site 360104004206 ATP binding site [chemical binding]; other site 360104004207 Walker B motif; other site 360104004208 enolase; Provisional; Region: eno; PRK00077 360104004209 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 360104004210 dimer interface [polypeptide binding]; other site 360104004211 metal binding site [ion binding]; metal-binding site 360104004212 substrate binding pocket [chemical binding]; other site 360104004213 AMIN domain; Region: AMIN; pfam11741 360104004214 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 360104004215 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 360104004216 active site 360104004217 DNA binding site [nucleotide binding] 360104004218 Int/Topo IB signature motif; other site 360104004219 tetrathionate reductase subunit A; Provisional; Region: PRK14991 360104004220 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 360104004221 putative [Fe4-S4] binding site [ion binding]; other site 360104004222 putative molybdopterin cofactor binding site [chemical binding]; other site 360104004223 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 360104004224 putative molybdopterin cofactor binding site; other site 360104004225 tetrathionate reductase subunit B; Provisional; Region: PRK14993 360104004226 4Fe-4S binding domain; Region: Fer4; cl02805 360104004227 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 360104004228 dimerization interface [polypeptide binding]; other site 360104004229 substrate binding site [chemical binding]; other site 360104004230 active site 360104004231 calcium binding site [ion binding]; other site 360104004232 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 360104004233 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 360104004234 GTP binding site; other site 360104004235 PQ loop repeat; Region: PQ-loop; cl12056 360104004236 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 360104004237 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 360104004238 substrate binding site [chemical binding]; other site 360104004239 ligand binding site [chemical binding]; other site 360104004240 Cache domain; Region: Cache_1; pfam02743 360104004241 MutS domain III; Region: MutS_III; pfam05192 360104004242 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360104004243 dimer interface [polypeptide binding]; other site 360104004244 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 360104004245 putative CheW interface [polypeptide binding]; other site 360104004246 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 360104004247 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 360104004248 Domain of unknown function (DUF814); Region: DUF814; pfam05670 360104004249 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 360104004250 BON domain; Region: BON; cl02771 360104004251 BON domain; Region: BON; cl02771 360104004252 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 360104004253 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 360104004254 VacJ like lipoprotein; Region: VacJ; cl01073 360104004255 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 360104004256 Helix-turn-helix domains; Region: HTH; cl00088 360104004257 TOBE domain; Region: TOBE_2; cl01440 360104004258 TOBE domain; Region: TOBE_2; cl01440 360104004259 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 360104004260 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 360104004261 TOBE domain; Region: TOBE_2; cl01440 360104004262 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 360104004263 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 360104004264 Walker A/P-loop; other site 360104004265 ATP binding site [chemical binding]; other site 360104004266 Q-loop/lid; other site 360104004267 ABC transporter signature motif; other site 360104004268 Walker B; other site 360104004269 D-loop; other site 360104004270 H-loop/switch region; other site 360104004271 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 360104004272 dimer interface [polypeptide binding]; other site 360104004273 conserved gate region; other site 360104004274 putative PBP binding loops; other site 360104004275 ABC-ATPase subunit interface; other site 360104004276 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 360104004277 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 360104004278 S-adenosylmethionine binding site [chemical binding]; other site 360104004279 Predicted methyltransferase regulatory domain; Region: MethyTransf_Reg; pfam10119 360104004280 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 cysteine...; Region: CysQ; cd01638 360104004281 active site 360104004282 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 360104004283 dimer interface [polypeptide binding]; other site 360104004284 Citrate synthase; Region: Citrate_synt; pfam00285 360104004285 active site 360104004286 citrylCoA binding site [chemical binding]; other site 360104004287 NADH binding [chemical binding]; other site 360104004288 cationic pore residues; other site 360104004289 oxalacetate/citrate binding site [chemical binding]; other site 360104004290 coenzyme A binding site [chemical binding]; other site 360104004291 catalytic triad [active] 360104004292 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 360104004293 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 360104004294 CrcB-like protein; Region: CRCB; cl09114 360104004295 biotin synthase; Provisional; Region: PRK08508 360104004296 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 360104004297 FeS/SAM binding site; other site 360104004298 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 360104004299 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 360104004300 DNA topoisomerase I; Validated; Region: PRK05582 360104004301 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 360104004302 active site 360104004303 interdomain interaction site; other site 360104004304 putative metal-binding site [ion binding]; other site 360104004305 nucleotide binding site [chemical binding]; other site 360104004306 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 360104004307 domain I; other site 360104004308 DNA binding groove [nucleotide binding] 360104004309 phosphate binding site [ion binding]; other site 360104004310 domain II; other site 360104004311 domain III; other site 360104004312 nucleotide binding site [chemical binding]; other site 360104004313 catalytic site [active] 360104004314 domain IV; other site 360104004315 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 360104004316 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 360104004317 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 360104004318 flagellin B; Provisional; Region: PRK13588 360104004319 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 360104004320 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 360104004321 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 360104004322 flagellin modification protein A; Provisional; Region: PRK09186 360104004323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104004324 NAD(P) binding site [chemical binding]; other site 360104004325 active site 360104004326 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 360104004327 ligand binding site; other site 360104004328 tetramer interface; other site 360104004329 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 360104004330 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104004331 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 360104004332 FOG: CBS domain [General function prediction only]; Region: COG0517 360104004333 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 360104004334 Substrate binding site; other site 360104004335 metal-binding site 360104004336 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 360104004337 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 360104004338 active site 360104004339 homodimer interface [polypeptide binding]; other site 360104004340 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 360104004341 NeuB family; Region: NeuB; cl00496 360104004342 SAF domain; Region: SAF; cl00555 360104004343 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 360104004344 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 360104004345 putative trimer interface [polypeptide binding]; other site 360104004346 putative CoA binding site [chemical binding]; other site 360104004347 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 360104004348 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 360104004349 inhibitor-cofactor binding pocket; inhibition site 360104004350 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104004351 catalytic residue [active] 360104004352 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 360104004353 trimer interface [polypeptide binding]; other site 360104004354 active site 360104004355 Protein of unknown function (DUF3737); Region: DUF3737; pfam12541 360104004356 YcxB-like protein; Region: YcxB; pfam14317 360104004357 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 360104004358 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 360104004359 putative [4Fe-4S] binding site [ion binding]; other site 360104004360 putative molybdopterin cofactor binding site [chemical binding]; other site 360104004361 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 360104004362 molybdopterin cofactor binding site; other site 360104004363 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 360104004364 4Fe-4S binding domain; Region: Fer4; cl02805 360104004365 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 360104004366 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 360104004367 Polysulphide reductase, NrfD; Region: NrfD; cl01295 360104004368 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 360104004369 active site 360104004370 catalytic nucleophile [active] 360104004371 dimer interface [polypeptide binding]; other site 360104004372 Herpes virus major outer envelope glycoprotein (BLLF1); Region: Herpes_BLLF1; pfam05109 360104004373 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004374 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 360104004375 homotrimer interaction site [polypeptide binding]; other site 360104004376 putative active site [active] 360104004377 Fumarase C-terminus; Region: Fumerase_C; cl00795 360104004378 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 360104004379 LemA family; Region: LemA; cl00742 360104004380 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 360104004381 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 360104004382 Domain of unknown function DUF21; Region: DUF21; pfam01595 360104004383 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 360104004384 Transporter associated domain; Region: CorC_HlyC; cl08393 360104004385 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 360104004386 Protein of unknown function, DUF; Region: DUF411; cl01142 360104004387 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 360104004388 Peptidase family M48; Region: Peptidase_M48; cl12018 360104004389 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 360104004390 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 360104004391 Coenzyme A binding pocket [chemical binding]; other site 360104004392 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 360104004393 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 360104004394 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 360104004395 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 360104004396 Sel1 repeat; Region: Sel1; cl02723 360104004397 Sel1 repeat; Region: Sel1; cl02723 360104004398 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 360104004399 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 360104004400 Walker A/P-loop; other site 360104004401 ATP binding site [chemical binding]; other site 360104004402 Q-loop/lid; other site 360104004403 ABC transporter signature motif; other site 360104004404 Walker B; other site 360104004405 D-loop; other site 360104004406 H-loop/switch region; other site 360104004407 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 360104004408 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360104004409 4Fe-4S binding domain; Region: Fer4_5; pfam12801 360104004410 4Fe-4S binding domain; Region: Fer4; cl02805 360104004411 Cytochrome c; Region: Cytochrom_C; cl11414 360104004412 Cytochrome c; Region: Cytochrom_C; cl11414 360104004413 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 360104004414 Pectate lyase; Region: Pec_lyase_C; cl01593 360104004415 nitrous-oxide reductase; Validated; Region: PRK02888 360104004416 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 360104004417 Cytochrome c; Region: Cytochrom_C; cl11414 360104004418 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 360104004419 trimer interface [polypeptide binding]; other site 360104004420 dimer interface [polypeptide binding]; other site 360104004421 putative active site [active] 360104004422 Protein of unknown function (DUF493); Region: DUF493; cl01102 360104004423 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional; Region: PLN03229 360104004424 Bacitracin resistance protein BacA; Region: BacA; cl00858 360104004425 transketolase; Reviewed; Region: PRK05899 360104004426 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 360104004427 TPP-binding site [chemical binding]; other site 360104004428 dimer interface [polypeptide binding]; other site 360104004429 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 360104004430 PYR/PP interface [polypeptide binding]; other site 360104004431 dimer interface [polypeptide binding]; other site 360104004432 TPP binding site [chemical binding]; other site 360104004433 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 360104004434 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 360104004435 substrate binding pocket [chemical binding]; other site 360104004436 chain length determination region; other site 360104004437 substrate-Mg2+ binding site; other site 360104004438 catalytic residues [active] 360104004439 aspartate-rich region 1; other site 360104004440 active site lid residues [active] 360104004441 aspartate-rich region 2; other site 360104004442 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 360104004443 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 360104004444 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 360104004445 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 360104004446 tetramerization interface [polypeptide binding]; other site 360104004447 active site 360104004448 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 360104004449 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 360104004450 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 360104004451 NifU-like domain; Region: NifU; cl00484 360104004452 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 360104004453 NMT1-like family; Region: NMT1_2; cl15260 360104004454 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 360104004455 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 360104004456 Walker A/P-loop; other site 360104004457 ATP binding site [chemical binding]; other site 360104004458 Q-loop/lid; other site 360104004459 ABC transporter signature motif; other site 360104004460 Walker B; other site 360104004461 D-loop; other site 360104004462 H-loop/switch region; other site 360104004463 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 360104004464 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 360104004465 dimer interface [polypeptide binding]; other site 360104004466 conserved gate region; other site 360104004467 putative PBP binding loops; other site 360104004468 ABC-ATPase subunit interface; other site 360104004469 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 360104004470 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 360104004471 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 360104004472 alphaNTD homodimer interface [polypeptide binding]; other site 360104004473 alphaNTD - beta interaction site [polypeptide binding]; other site 360104004474 alphaNTD - beta' interaction site [polypeptide binding]; other site 360104004475 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 360104004476 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 360104004477 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 360104004478 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 360104004479 RNA binding surface [nucleotide binding]; other site 360104004480 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 360104004481 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 360104004482 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 360104004483 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 360104004484 rRNA binding site [nucleotide binding]; other site 360104004485 predicted 30S ribosome binding site; other site 360104004486 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 360104004487 active site 360104004488 SecY translocase; Region: SecY; pfam00344 360104004489 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 360104004490 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 360104004491 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 360104004492 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 360104004493 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 360104004494 5S rRNA interface [nucleotide binding]; other site 360104004495 23S rRNA interface [nucleotide binding]; other site 360104004496 L5 interface [polypeptide binding]; other site 360104004497 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 360104004498 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 360104004499 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 360104004500 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 360104004501 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 360104004502 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 360104004503 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 360104004504 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 360104004505 KOW motif; Region: KOW; cl00354 360104004506 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 360104004507 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 360104004508 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 360104004509 putative translocon interaction site; other site 360104004510 23S rRNA interface [nucleotide binding]; other site 360104004511 signal recognition particle (SRP54) interaction site; other site 360104004512 L23 interface [polypeptide binding]; other site 360104004513 trigger factor interaction site; other site 360104004514 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 360104004515 23S rRNA interface [nucleotide binding]; other site 360104004516 5S rRNA interface [nucleotide binding]; other site 360104004517 putative antibiotic binding site [chemical binding]; other site 360104004518 L25 interface [polypeptide binding]; other site 360104004519 L27 interface [polypeptide binding]; other site 360104004520 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 360104004521 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 360104004522 G-X-X-G motif; other site 360104004523 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 360104004524 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 360104004525 putative translocon binding site; other site 360104004526 protein-rRNA interface [nucleotide binding]; other site 360104004527 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 360104004528 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 360104004529 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 360104004530 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 360104004531 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 360104004532 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 360104004533 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 360104004534 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 360104004535 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104004536 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 360104004537 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 360104004538 RNA/DNA hybrid binding site [nucleotide binding]; other site 360104004539 active site 360104004540 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 360104004541 ribosome recycling factor; Reviewed; Region: frr; PRK00083 360104004542 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 round of...; Region: RRF; cd00520 360104004543 hinge region; other site 360104004544 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 360104004545 putative active site [active] 360104004546 putative metal binding site [ion binding]; other site 360104004547 Preprotein translocase SecG subunit; Region: SecG; cl09123 360104004548 thiamine-phosphate pyrophosphorylase; Provisional; Region: PRK02615 360104004549 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 360104004550 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 360104004551 active site clefts [active] 360104004552 zinc binding site [ion binding]; other site 360104004553 dimer interface [polypeptide binding]; other site 360104004554 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104004555 metal binding site [ion binding]; metal-binding site 360104004556 active site 360104004557 I-site; other site 360104004558 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 360104004559 metal binding site [ion binding]; metal-binding site 360104004560 active site 360104004561 I-site; other site 360104004562 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 360104004563 DctM-like transporters; Region: DctM; pfam06808 360104004564 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 360104004565 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 360104004566 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 360104004567 superoxide dismutase; Provisional; Region: PRK10543 360104004568 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 360104004569 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 360104004570 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 360104004571 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 360104004572 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104004573 homodimer interface [polypeptide binding]; other site 360104004574 catalytic residue [active] 360104004575 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 360104004576 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 360104004577 homodimer interface [polypeptide binding]; other site 360104004578 substrate-cofactor binding pocket; other site 360104004579 pyridoxal 5'-phosphate binding site [chemical binding]; other site 360104004580 catalytic residue [active] 360104004581 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 360104004582 dimer interface [polypeptide binding]; other site 360104004583 catalytic triad [active] 360104004584 peroxidatic and resolving cysteines [active] 360104004585 Family description; Region: UvrD_C_2; cl15862 360104004586 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 360104004587 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 360104004588 active site 360104004589 Int/Topo IB signature motif; other site 360104004590 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 360104004591 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 360104004592 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 360104004593 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 360104004594 Terminase-like family; Region: Terminase_6; pfam03237 360104004595 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 360104004596 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 360104004597 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 360104004598 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 360104004599 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 360104004600 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 360104004601 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 360104004602 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 360104004603 dimer interface [polypeptide binding]; other site 360104004604 putative radical transfer pathway; other site 360104004605 diiron center [ion binding]; other site 360104004606 tyrosyl radical; other site 360104004607 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 360104004608 active site 360104004609 catalytic triad [active] 360104004610 dimer interface [polypeptide binding]; other site 360104004611 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 360104004612 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 360104004613 S-adenosylmethionine binding site [chemical binding]; other site 360104004614 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 360104004615 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 360104004616 DHH family; Region: DHH; pfam01368 360104004617 DHHA1 domain; Region: DHHA1; pfam02272 360104004618 CTP synthetase; Validated; Region: pyrG; PRK05380 360104004619 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 360104004620 Catalytic site [active] 360104004621 active site 360104004622 UTP binding site [chemical binding]; other site 360104004623 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 360104004624 active site 360104004625 putative oxyanion hole; other site 360104004626 catalytic triad [active] 360104004627 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 360104004628 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 360104004629 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 360104004630 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 360104004631 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 360104004632 Plasmodium Vir superfamily; Provisional; Region: PTZ00473 360104004633 DnaJ central domain; Region: DnaJ_CXXCXGXG; pfam00684 360104004634 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 360104004635 Zn binding sites [ion binding]; other site 360104004636 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 360104004637 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004638 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004639 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004640 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004641 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004642 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004643 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004644 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004645 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004646 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004647 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004648 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004649 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004650 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004651 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004652 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004653 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 360104004654 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 360104004655 active site 360104004656 homotetramer interface [polypeptide binding]; other site 360104004657 homodimer interface [polypeptide binding]; other site 360104004658 Dehydratase family; Region: ILVD_EDD; cl00340 360104004659 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 360104004660 dimer interface [polypeptide binding]; other site 360104004661 substrate binding site [chemical binding]; other site 360104004662 ATP binding site [chemical binding]; other site 360104004663 Response regulator receiver domain; Region: Response_reg; pfam00072 360104004664 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 360104004665 active site 360104004666 phosphorylation site [posttranslational modification] 360104004667 intermolecular recognition site; other site 360104004668 dimerization interface [polypeptide binding]; other site 360104004669 Helix-turn-helix domains; Region: HTH; cl00088 360104004670 DNA binding site [nucleotide binding] 360104004671 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 360104004672 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; cl00075 360104004673 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 360104004674 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 360104004675 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 360104004676 catalytic residues [active] 360104004677 hinge region; other site 360104004678 alpha helical domain; other site 360104004679 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 360104004680 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 360104004681 non-heme iron binding site [ion binding]; other site 360104004682 dimer interface [polypeptide binding]; other site 360104004683 Rubrerythrin [Energy production and conversion]; Region: COG1592 360104004684 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 360104004685 binuclear metal center [ion binding]; other site 360104004686 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 360104004687 iron binding site [ion binding]; other site 360104004688 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 360104004689 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 360104004690 Tannase and feruloyl esterase; Region: Tannase; pfam07519 360104004691 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 360104004692 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 360104004693 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 360104004694 classical (c) SDRs; Region: SDR_c; cd05233 360104004695 NAD(P) binding site [chemical binding]; other site 360104004696 active site 360104004697 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 360104004698 NADH(P)-binding; Region: NAD_binding_10; pfam13460 360104004699 NAD binding site [chemical binding]; other site 360104004700 active site 360104004701 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 360104004702 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 360104004703 dimer interface [polypeptide binding]; other site 360104004704 active site 360104004705 metal binding site [ion binding]; metal-binding site 360104004706 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 360104004707 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 360104004708 FeS/SAM binding site; other site 360104004709 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 360104004710 ATP cone domain; Region: ATP-cone; pfam03477 360104004711 Class III ribonucleotide reductase; Region: RNR_III; cd01675 360104004712 effector binding site; other site 360104004713 active site 360104004714 Zn binding site [ion binding]; other site 360104004715 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08447 360104004716 ATP cone domain; Region: ATP-cone; pfam03477 360104004717 Class I ribonucleotide reductase; Region: RNR_I; cd01679 360104004718 active site 360104004719 dimer interface [polypeptide binding]; other site 360104004720 catalytic residues [active] 360104004721 effector binding site; other site 360104004722 R2 peptide binding site; other site 360104004723 adenylosuccinate lyase; Provisional; Region: PRK08470 360104004724 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 360104004725 tetramer interface [polypeptide binding]; other site 360104004726 active site 360104004727 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 360104004728 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 360104004729 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 360104004730 active site 360104004731 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14462 360104004732 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 360104004733 FeS/SAM binding site; other site 360104004734 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 360104004735 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 360104004736 substrate binding site [chemical binding]; other site 360104004737 glutamase interaction surface [polypeptide binding]; other site 360104004738 seryl-tRNA synthetase; Provisional; Region: PRK05431 360104004739 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 360104004740 Family description; Region: UvrD_C_2; cl15862 360104004741 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104004742 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 360104004743 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 360104004744 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 360104004745 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 360104004746 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 360104004747 putative active site [active] 360104004748 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 360104004749 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 360104004750 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 360104004751 RNA binding surface [nucleotide binding]; other site 360104004752 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 360104004753 active site 360104004754 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 360104004755 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 360104004756 Walker A/P-loop; other site 360104004757 ATP binding site [chemical binding]; other site 360104004758 Q-loop/lid; other site 360104004759 ABC transporter signature motif; other site 360104004760 Walker B; other site 360104004761 D-loop; other site 360104004762 H-loop/switch region; other site 360104004763 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 360104004764 FtsX-like permease family; Region: FtsX; cl15850 360104004765 NosL; Region: NosL; cl01769 360104004766 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 360104004767 Sel1 repeat; Region: Sel1; cl02723 360104004768 Sel1 repeat; Region: Sel1; cl02723 360104004769 Sel1 repeat; Region: Sel1; cl02723 360104004770 Sel1 repeat; Region: Sel1; cl02723 360104004771 Sel1 repeat; Region: Sel1; cl02723 360104004772 Sel1 repeat; Region: Sel1; cl02723 360104004773 ResB-like family; Region: ResB; pfam05140 360104004774 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 360104004775 Polysulphide reductase, NrfD; Region: NrfD; cl01295 360104004776 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 360104004777 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 360104004778 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 360104004779 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 360104004780 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 360104004781 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 360104004782 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 360104004783 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 360104004784 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 360104004785 ATP binding site [chemical binding]; other site 360104004786 G-X-G motif; other site 360104004787 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 360104004788 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 360104004789 active site 360104004790 phosphorylation site [posttranslational modification] 360104004791 intermolecular recognition site; other site 360104004792 dimerization interface [polypeptide binding]; other site 360104004793 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 360104004794 DNA binding site [nucleotide binding] 360104004795 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 360104004796 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 360104004797 active site 360104004798 Predicted permease [General function prediction only]; Region: COG2056 360104004799 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 360104004800 flagellar hook protein FlgE; Validated; Region: flgE; PRK08425 360104004801 Flagella basal body rod protein; Region: Flg_bb_rod; cl15793 360104004802 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 360104004803 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 360104004804 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 360104004805 Thymidylate synthase complementing protein; Region: Thy1; cl03630 360104004806 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 360104004807 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 360104004808 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 360104004809 Cache domain; Region: Cache_1; pfam02743 360104004810 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 360104004811 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 360104004812 dimer interface [polypeptide binding]; other site 360104004813 putative CheW interface [polypeptide binding]; other site 360104004814 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 360104004815 MOSC domain; Region: MOSC; pfam03473 360104004816 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 includes...; Region: RuvC_resolvase; cd00529 360104004817 active site 360104004818 putative DNA-binding cleft [nucleotide binding]; other site 360104004819 dimer interface [polypeptide binding]; other site