-- dump date 20140619_111905 -- class Genbank::misc_feature -- table misc_feature_note -- id note 555778000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 555778000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 555778000003 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 555778000004 Walker A motif; other site 555778000005 ATP binding site [chemical binding]; other site 555778000006 Walker B motif; other site 555778000007 arginine finger; other site 555778000008 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 555778000009 DnaA box-binding interface [nucleotide binding]; other site 555778000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 555778000011 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 555778000012 putative DNA binding surface [nucleotide binding]; other site 555778000013 dimer interface [polypeptide binding]; other site 555778000014 beta-clamp/clamp loader binding surface; other site 555778000015 beta-clamp/translesion DNA polymerase binding surface; other site 555778000016 recombination protein F; Reviewed; Region: recF; PRK00064 555778000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 555778000018 Walker A/P-loop; other site 555778000019 ATP binding site [chemical binding]; other site 555778000020 Q-loop/lid; other site 555778000021 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 555778000022 ABC transporter signature motif; other site 555778000023 Walker B; other site 555778000024 D-loop; other site 555778000025 H-loop/switch region; other site 555778000026 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 555778000027 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 555778000028 Mg2+ binding site [ion binding]; other site 555778000029 G-X-G motif; other site 555778000030 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 555778000031 anchoring element; other site 555778000032 dimer interface [polypeptide binding]; other site 555778000033 ATP binding site [chemical binding]; other site 555778000034 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 555778000035 active site 555778000036 putative metal-binding site [ion binding]; other site 555778000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 555778000038 LemA family; Region: LemA; cl00742 555778000039 E3 Ubiquitin ligase; Region: GIDE; pfam12483 555778000040 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 555778000041 putative catalytic site [active] 555778000042 putative phosphate binding site [ion binding]; other site 555778000043 active site 555778000044 metal binding site A [ion binding]; metal-binding site 555778000045 DNA binding site [nucleotide binding] 555778000046 putative AP binding site [nucleotide binding]; other site 555778000047 putative metal binding site B [ion binding]; other site 555778000048 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 555778000049 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 555778000050 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 555778000051 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 555778000052 Walker A/P-loop; other site 555778000053 ATP binding site [chemical binding]; other site 555778000054 Q-loop/lid; other site 555778000055 ABC transporter signature motif; other site 555778000056 Walker B; other site 555778000057 D-loop; other site 555778000058 H-loop/switch region; other site 555778000059 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 555778000060 active site 555778000061 catalytic triad [active] 555778000062 oxyanion hole [active] 555778000063 switch loop; other site 555778000064 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 555778000065 putative active site [active] 555778000066 Transposase; Region: DEDD_Tnp_IS110; pfam01548 555778000067 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 555778000068 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 555778000069 Pilin (bacterial filament); Region: Pilin; pfam00114 555778000070 Type II transport protein GspH; Region: GspH; pfam12019 555778000071 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 555778000072 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 555778000073 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 555778000074 PilX N-terminal; Region: PilX_N; pfam14341 555778000075 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 555778000076 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 555778000077 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 555778000078 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 555778000079 Type II transport protein GspH; Region: GspH; pfam12019 555778000080 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 555778000081 putative active site [active] 555778000082 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 555778000083 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 555778000084 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 555778000085 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 555778000086 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 555778000087 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 555778000088 dimer interface [polypeptide binding]; other site 555778000089 ssDNA binding site [nucleotide binding]; other site 555778000090 tetramer (dimer of dimers) interface [polypeptide binding]; other site 555778000091 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 555778000092 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 555778000093 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 555778000094 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 555778000095 active site 555778000096 metal binding site [ion binding]; metal-binding site 555778000097 homotetramer interface [polypeptide binding]; other site 555778000098 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 555778000099 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 555778000100 substrate binding site [chemical binding]; other site 555778000101 ATP binding site [chemical binding]; other site 555778000102 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 555778000103 iron-sulfur cluster [ion binding]; other site 555778000104 [2Fe-2S] cluster binding site [ion binding]; other site 555778000105 PAS fold; Region: PAS_4; pfam08448 555778000106 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 555778000107 putative active site [active] 555778000108 heme pocket [chemical binding]; other site 555778000109 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778000110 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778000111 metal binding site [ion binding]; metal-binding site 555778000112 active site 555778000113 I-site; other site 555778000114 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 555778000115 BolA-like protein; Region: BolA; pfam01722 555778000116 HDOD domain; Region: HDOD; pfam08668 555778000117 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 555778000118 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 555778000119 Zn2+ binding site [ion binding]; other site 555778000120 Mg2+ binding site [ion binding]; other site 555778000121 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 555778000122 synthetase active site [active] 555778000123 NTP binding site [chemical binding]; other site 555778000124 metal binding site [ion binding]; metal-binding site 555778000125 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 555778000126 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 555778000127 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 555778000128 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 555778000129 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 555778000130 catalytic site [active] 555778000131 G-X2-G-X-G-K; other site 555778000132 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 555778000133 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 555778000134 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 555778000135 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 555778000136 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 555778000137 putative active site [active] 555778000138 putative catalytic site [active] 555778000139 putative DNA binding site [nucleotide binding]; other site 555778000140 putative phosphate binding site [ion binding]; other site 555778000141 metal binding site A [ion binding]; metal-binding site 555778000142 putative AP binding site [nucleotide binding]; other site 555778000143 putative metal binding site B [ion binding]; other site 555778000144 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 555778000145 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 555778000146 active site 555778000147 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 555778000148 protein binding site [polypeptide binding]; other site 555778000149 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 555778000150 protein binding site [polypeptide binding]; other site 555778000151 PhoD-like phosphatase; Region: PhoD; pfam09423 555778000152 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 555778000153 putative active site [active] 555778000154 putative metal binding site [ion binding]; other site 555778000155 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 555778000156 HAD-superfamily subfamily IIA hydrolase, TIGR01458; Region: HAD-SF-IIA-hyp3 555778000157 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 555778000158 active site 555778000159 motif I; other site 555778000160 motif II; other site 555778000161 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 555778000162 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 555778000163 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 555778000164 putative MPT binding site; other site 555778000165 ferrochelatase; Reviewed; Region: hemH; PRK00035 555778000166 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 555778000167 C-terminal domain interface [polypeptide binding]; other site 555778000168 active site 555778000169 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 555778000170 active site 555778000171 N-terminal domain interface [polypeptide binding]; other site 555778000172 thioredoxin reductase; Provisional; Region: PRK10262 555778000173 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 555778000174 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 555778000175 5'-nucleotidase; Provisional; Region: PRK03826 555778000176 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 555778000177 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 555778000178 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 555778000179 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 555778000180 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 555778000181 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 555778000182 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 555778000183 purine monophosphate binding site [chemical binding]; other site 555778000184 dimer interface [polypeptide binding]; other site 555778000185 putative catalytic residues [active] 555778000186 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 555778000187 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 555778000188 RmuC family; Region: RmuC; pfam02646 555778000189 PrpA and PrpB, metallophosphatase domain; Region: MPP_PrpA_PrpB; cd07424 555778000190 active site 555778000191 metal binding site [ion binding]; metal-binding site 555778000192 DsrE/DsrF-like family; Region: DrsE; pfam02635 555778000193 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 555778000194 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 555778000195 metal binding triad; other site 555778000196 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 555778000197 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 555778000198 metal binding triad; other site 555778000199 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 555778000200 periplasmic chaperone; Provisional; Region: PRK10780 555778000201 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 555778000202 Phosphopantetheine attachment site; Region: PP-binding; cl09936 555778000203 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 555778000204 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 555778000205 dimer interface [polypeptide binding]; other site 555778000206 active site 555778000207 Phosphopantetheine attachment site; Region: PP-binding; cl09936 555778000208 Predicted membrane protein [Function unknown]; Region: COG4648 555778000209 AMP-binding enzyme; Region: AMP-binding; pfam00501 555778000210 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 555778000211 AMP binding site [chemical binding]; other site 555778000212 active site 555778000213 acyl-activating enzyme (AAE) consensus motif; other site 555778000214 CoA binding site [chemical binding]; other site 555778000215 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 555778000216 active site 2 [active] 555778000217 dimer interface [polypeptide binding]; other site 555778000218 active site 1 [active] 555778000219 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 555778000220 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 555778000221 putative acyl-acceptor binding pocket; other site 555778000222 Predicted exporter [General function prediction only]; Region: COG4258 555778000223 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 555778000224 active site 2 [active] 555778000225 active site 1 [active] 555778000226 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 555778000227 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 555778000228 putative ligand binding site [chemical binding]; other site 555778000229 putative NAD binding site [chemical binding]; other site 555778000230 catalytic site [active] 555778000231 PilZ domain; Region: PilZ; pfam07238 555778000232 glutamate racemase; Provisional; Region: PRK00865 555778000233 toxin-antitoxin system, toxin component, Txe/YoeB family; Region: toxin_Txe_YoeB; TIGR02116 555778000234 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 555778000235 YniB-like protein; Region: YniB; pfam14002 555778000236 Predicted ATPase [General function prediction only]; Region: COG3911 555778000237 AAA domain; Region: AAA_28; pfam13521 555778000238 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 555778000239 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 555778000240 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 555778000241 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 555778000242 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 555778000243 Coenzyme A binding pocket [chemical binding]; other site 555778000244 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 555778000245 putative mercury transport protein MerC; Provisional; Region: PRK13755 555778000246 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 555778000247 S-adenosylmethionine binding site [chemical binding]; other site 555778000248 SWIM zinc finger; Region: SWIM; pfam04434 555778000249 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 555778000250 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 555778000251 ATP binding site [chemical binding]; other site 555778000252 putative Mg++ binding site [ion binding]; other site 555778000253 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 555778000254 nucleotide binding region [chemical binding]; other site 555778000255 ATP-binding site [chemical binding]; other site 555778000256 FeoA domain; Region: FeoA; pfam04023 555778000257 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 555778000258 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 555778000259 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 555778000260 G1 box; other site 555778000261 GTP/Mg2+ binding site [chemical binding]; other site 555778000262 Switch I region; other site 555778000263 G2 box; other site 555778000264 G3 box; other site 555778000265 Switch II region; other site 555778000266 G4 box; other site 555778000267 G5 box; other site 555778000268 Nucleoside recognition; Region: Gate; pfam07670 555778000269 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 555778000270 Nucleoside recognition; Region: Gate; pfam07670 555778000271 FeoC like transcriptional regulator; Region: FeoC; cl17677 555778000272 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 555778000273 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 555778000274 HSP70 interaction site [polypeptide binding]; other site 555778000275 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 555778000276 substrate binding site [polypeptide binding]; other site 555778000277 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 555778000278 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 555778000279 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 555778000280 putative active site pocket [active] 555778000281 4-fold oligomerization interface [polypeptide binding]; other site 555778000282 metal binding residues [ion binding]; metal-binding site 555778000283 3-fold/trimer interface [polypeptide binding]; other site 555778000284 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 555778000285 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 555778000286 putative active site [active] 555778000287 oxyanion strand; other site 555778000288 catalytic triad [active] 555778000289 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 555778000290 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 555778000291 catalytic residues [active] 555778000292 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 555778000293 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 555778000294 substrate binding site [chemical binding]; other site 555778000295 glutamase interaction surface [polypeptide binding]; other site 555778000296 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 555778000297 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 555778000298 metal binding site [ion binding]; metal-binding site 555778000299 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 555778000300 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 555778000301 sec-independent translocase; Provisional; Region: tatB; PRK00404 555778000302 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 555778000303 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 555778000304 phosphoglyceromutase; Provisional; Region: PRK05434 555778000305 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 555778000306 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 555778000307 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 555778000308 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 555778000309 Walker A/P-loop; other site 555778000310 ATP binding site [chemical binding]; other site 555778000311 Q-loop/lid; other site 555778000312 ABC transporter signature motif; other site 555778000313 Walker B; other site 555778000314 D-loop; other site 555778000315 H-loop/switch region; other site 555778000316 Cytochrome c; Region: Cytochrom_C; cl11414 555778000317 Cytochrome c; Region: Cytochrom_C; cl11414 555778000318 Cytochrome c; Region: Cytochrom_C; cl11414 555778000319 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 555778000320 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 555778000321 generic binding surface I; other site 555778000322 generic binding surface II; other site 555778000323 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 555778000324 ATP binding site [chemical binding]; other site 555778000325 putative Mg++ binding site [ion binding]; other site 555778000326 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 555778000327 nucleotide binding region [chemical binding]; other site 555778000328 ATP-binding site [chemical binding]; other site 555778000329 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 555778000330 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 555778000331 putative dimer interface [polypeptide binding]; other site 555778000332 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 555778000333 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 555778000334 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 555778000335 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 555778000336 ligand binding site [chemical binding]; other site 555778000337 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 555778000338 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 555778000339 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 555778000340 Autotransporter beta-domain; Region: Autotransporter; pfam03797 555778000341 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 555778000342 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 555778000343 dimer interface [polypeptide binding]; other site 555778000344 phosphorylation site [posttranslational modification] 555778000345 Response regulator receiver domain; Region: Response_reg; pfam00072 555778000346 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 555778000347 active site 555778000348 phosphorylation site [posttranslational modification] 555778000349 intermolecular recognition site; other site 555778000350 dimerization interface [polypeptide binding]; other site 555778000351 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778000352 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778000353 metal binding site [ion binding]; metal-binding site 555778000354 active site 555778000355 I-site; other site 555778000356 Response regulator receiver domain; Region: Response_reg; pfam00072 555778000357 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 555778000358 active site 555778000359 phosphorylation site [posttranslational modification] 555778000360 intermolecular recognition site; other site 555778000361 dimerization interface [polypeptide binding]; other site 555778000362 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 555778000363 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 555778000364 HAMP domain; Region: HAMP; pfam00672 555778000365 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 555778000366 dimer interface [polypeptide binding]; other site 555778000367 phosphorylation site [posttranslational modification] 555778000368 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 555778000369 ATP binding site [chemical binding]; other site 555778000370 Mg2+ binding site [ion binding]; other site 555778000371 G-X-G motif; other site 555778000372 Response regulator receiver domain; Region: Response_reg; pfam00072 555778000373 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 555778000374 active site 555778000375 phosphorylation site [posttranslational modification] 555778000376 intermolecular recognition site; other site 555778000377 dimerization interface [polypeptide binding]; other site 555778000378 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 555778000379 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 555778000380 active site 555778000381 phosphorylation site [posttranslational modification] 555778000382 intermolecular recognition site; other site 555778000383 dimerization interface [polypeptide binding]; other site 555778000384 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 555778000385 active site 555778000386 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 555778000387 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 555778000388 oligomer interface [polypeptide binding]; other site 555778000389 metal binding site [ion binding]; metal-binding site 555778000390 metal binding site [ion binding]; metal-binding site 555778000391 Cl binding site [ion binding]; other site 555778000392 aspartate ring; other site 555778000393 basic sphincter; other site 555778000394 putative hydrophobic gate; other site 555778000395 periplasmic entrance; other site 555778000396 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 555778000397 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 555778000398 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 555778000399 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 555778000400 active site 555778000401 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 555778000402 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 555778000403 type II secretion system protein D; Region: type_II_gspD; TIGR02517 555778000404 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 555778000405 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 555778000406 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 555778000407 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 555778000408 type II secretion system protein E; Region: type_II_gspE; TIGR02533 555778000409 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 555778000410 Walker A motif; other site 555778000411 ATP binding site [chemical binding]; other site 555778000412 Walker B motif; other site 555778000413 type II secretion system protein F; Region: GspF; TIGR02120 555778000414 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 555778000415 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 555778000416 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 555778000417 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 555778000418 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 555778000419 type II secretion system protein J; Region: gspJ; TIGR01711 555778000420 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 555778000421 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 555778000422 Type II secretory pathway, component PulL [Intracellular trafficking and secretion]; Region: PulL; COG3297 555778000423 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 555778000424 GspL periplasmic domain; Region: GspL_C; cl14909 555778000425 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 555778000426 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 555778000427 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 555778000428 BCCT family transporter; Region: BCCT; pfam02028 555778000429 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 555778000430 putative substrate translocation pore; other site 555778000431 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 555778000432 Major Facilitator Superfamily; Region: MFS_1; pfam07690 555778000433 putative substrate translocation pore; other site 555778000434 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 555778000435 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 555778000436 TPR motif; other site 555778000437 TPR repeat; Region: TPR_11; pfam13414 555778000438 binding surface 555778000439 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 555778000440 Catalytic domain of Protein Kinases; Region: PKc; cd00180 555778000441 active site 555778000442 ATP binding site [chemical binding]; other site 555778000443 substrate binding site [chemical binding]; other site 555778000444 activation loop (A-loop); other site 555778000445 HAMP domain; Region: HAMP; pfam00672 555778000446 dimerization interface [polypeptide binding]; other site 555778000447 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 555778000448 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 555778000449 phosphopeptide binding site; other site 555778000450 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 555778000451 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 555778000452 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 555778000453 Walker A/P-loop; other site 555778000454 ATP binding site [chemical binding]; other site 555778000455 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 555778000456 ABC transporter signature motif; other site 555778000457 Walker B; other site 555778000458 D-loop; other site 555778000459 H-loop/switch region; other site 555778000460 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 555778000461 FtsZ protein binding site [polypeptide binding]; other site 555778000462 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 555778000463 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 555778000464 nucleotide binding pocket [chemical binding]; other site 555778000465 K-X-D-G motif; other site 555778000466 catalytic site [active] 555778000467 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 555778000468 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 555778000469 Helix-hairpin-helix motif; Region: HHH; pfam00633 555778000470 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 555778000471 Dimer interface [polypeptide binding]; other site 555778000472 BRCT sequence motif; other site 555778000473 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 555778000474 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 555778000475 substrate binding pocket [chemical binding]; other site 555778000476 chain length determination region; other site 555778000477 substrate-Mg2+ binding site; other site 555778000478 catalytic residues [active] 555778000479 aspartate-rich region 1; other site 555778000480 active site lid residues [active] 555778000481 aspartate-rich region 2; other site 555778000482 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 555778000483 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 555778000484 putative DNA binding site [nucleotide binding]; other site 555778000485 putative Zn2+ binding site [ion binding]; other site 555778000486 AsnC family; Region: AsnC_trans_reg; pfam01037 555778000487 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 555778000488 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 555778000489 Walker A/P-loop; other site 555778000490 ATP binding site [chemical binding]; other site 555778000491 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 555778000492 ABC transporter signature motif; other site 555778000493 Walker B; other site 555778000494 D-loop; other site 555778000495 ABC transporter; Region: ABC_tran_2; pfam12848 555778000496 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 555778000497 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 555778000498 catalytic core [active] 555778000499 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 555778000500 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 555778000501 putative active site [active] 555778000502 transaldolase; Provisional; Region: PRK03903 555778000503 catalytic residue [active] 555778000504 DsrE/DsrF-like family; Region: DrsE; cl00672 555778000505 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 555778000506 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 555778000507 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 555778000508 DNA binding residues [nucleotide binding] 555778000509 DsrE/DsrF-like family; Region: DrsE; pfam02635 555778000510 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 555778000511 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 555778000512 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 555778000513 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778000514 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778000515 metal binding site [ion binding]; metal-binding site 555778000516 active site 555778000517 I-site; other site 555778000518 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 555778000519 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 555778000520 Flavoprotein; Region: Flavoprotein; pfam02441 555778000521 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 555778000522 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 555778000523 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 555778000524 trimer interface [polypeptide binding]; other site 555778000525 active site 555778000526 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 555778000527 feedback inhibition sensing region; other site 555778000528 homohexameric interface [polypeptide binding]; other site 555778000529 carbamate kinase; Reviewed; Region: PRK12686 555778000530 nucleotide binding site [chemical binding]; other site 555778000531 N-acetyl-L-glutamate binding site [chemical binding]; other site 555778000532 DsrE/DsrF-like family; Region: DrsE; cl00672 555778000533 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 555778000534 Major Facilitator Superfamily; Region: MFS_1; pfam07690 555778000535 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 555778000536 putative substrate translocation pore; other site 555778000537 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 555778000538 dimerization interface [polypeptide binding]; other site 555778000539 putative DNA binding site [nucleotide binding]; other site 555778000540 putative Zn2+ binding site [ion binding]; other site 555778000541 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 555778000542 active site residue [active] 555778000543 MoxR-like ATPases [General function prediction only]; Region: COG0714 555778000544 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 555778000545 Walker A motif; other site 555778000546 ATP binding site [chemical binding]; other site 555778000547 Walker B motif; other site 555778000548 arginine finger; other site 555778000549 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 555778000550 Protein of unknown function DUF58; Region: DUF58; pfam01882 555778000551 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 555778000552 metal ion-dependent adhesion site (MIDAS); other site 555778000553 von Willebrand factor type A domain; Region: VWA_2; pfam13519 555778000554 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 555778000555 High potential iron-sulfur protein; Region: HIPIP; pfam01355 555778000556 Uncharacterized conserved protein [Function unknown]; Region: COG0397 555778000557 hypothetical protein; Validated; Region: PRK00029 555778000558 OpgC protein; Region: OpgC_C; cl17858 555778000559 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 555778000560 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 555778000561 Coenzyme A binding pocket [chemical binding]; other site 555778000562 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 555778000563 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 555778000564 inhibitor-cofactor binding pocket; inhibition site 555778000565 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778000566 catalytic residue [active] 555778000567 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 555778000568 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 555778000569 active site 555778000570 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 555778000571 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 555778000572 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 555778000573 active site residue [active] 555778000574 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 555778000575 active site residue [active] 555778000576 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 555778000577 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 555778000578 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 555778000579 active site 555778000580 Riboflavin kinase; Region: Flavokinase; pfam01687 555778000581 Restriction endonuclease EcoRV; Region: Endonuc-EcoRV; pfam09233 555778000582 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 555778000583 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 555778000584 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 555778000585 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 555778000586 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 555778000587 HlyD family secretion protein; Region: HlyD_3; pfam13437 555778000588 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 555778000589 osmolarity response regulator; Provisional; Region: ompR; PRK09468 555778000590 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 555778000591 active site 555778000592 phosphorylation site [posttranslational modification] 555778000593 intermolecular recognition site; other site 555778000594 dimerization interface [polypeptide binding]; other site 555778000595 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 555778000596 DNA binding site [nucleotide binding] 555778000597 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 555778000598 dimer interface [polypeptide binding]; other site 555778000599 phosphorylation site [posttranslational modification] 555778000600 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 555778000601 Mg2+ binding site [ion binding]; other site 555778000602 G-X-G motif; other site 555778000603 glutamine synthetase; Provisional; Region: glnA; PRK09469 555778000604 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 555778000605 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 555778000606 TspO/MBR family; Region: TspO_MBR; pfam03073 555778000607 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 555778000608 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 555778000609 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 555778000610 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 555778000611 Transcriptional regulator [Transcription]; Region: LysR; COG0583 555778000612 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 555778000613 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 555778000614 putative dimerization interface [polypeptide binding]; other site 555778000615 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 555778000616 hypothetical protein; Provisional; Region: PRK09256 555778000617 YaeQ protein; Region: YaeQ; pfam07152 555778000618 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 555778000619 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 555778000620 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 555778000621 dimerization interface [polypeptide binding]; other site 555778000622 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 555778000623 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 555778000624 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 555778000625 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 555778000626 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 555778000627 FtsX-like permease family; Region: FtsX; pfam02687 555778000628 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 555778000629 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 555778000630 Walker A/P-loop; other site 555778000631 ATP binding site [chemical binding]; other site 555778000632 Q-loop/lid; other site 555778000633 ABC transporter signature motif; other site 555778000634 Walker B; other site 555778000635 D-loop; other site 555778000636 H-loop/switch region; other site 555778000637 Alkaline and neutral invertase; Region: Glyco_hydro_100; pfam12899 555778000638 sucrose-phosphate synthase, putative, glycosyltransferase domain; Region: sucr_P_syn_N; TIGR02472 555778000639 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 555778000640 putative ADP-binding pocket [chemical binding]; other site 555778000641 sucrose phosphate synthase, sucrose phosphatase-like domain, bacterial; Region: sucr_syn_bact_C; TIGR02471 555778000642 Sucrose-6F-phosphate phosphohydrolase; Region: S6PP; pfam05116 555778000643 Mechanosensitive ion channel; Region: MS_channel; pfam00924 555778000644 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 555778000645 Pilin (bacterial filament); Region: Pilin; pfam00114 555778000646 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 555778000647 Transglycosylase; Region: Transgly; cl17702 555778000648 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 555778000649 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 555778000650 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 555778000651 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 555778000652 active site 555778000653 NTP binding site [chemical binding]; other site 555778000654 metal binding triad [ion binding]; metal-binding site 555778000655 antibiotic binding site [chemical binding]; other site 555778000656 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; cl17552 555778000657 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 555778000658 S-adenosylmethionine binding site [chemical binding]; other site 555778000659 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 555778000660 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 555778000661 Methyltransferase domain; Region: Methyltransf_23; pfam13489 555778000662 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 555778000663 S-adenosylmethionine binding site [chemical binding]; other site 555778000664 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 555778000665 trimer interface [polypeptide binding]; other site 555778000666 active site 555778000667 substrate binding site [chemical binding]; other site 555778000668 CoA binding site [chemical binding]; other site 555778000669 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 555778000670 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 555778000671 inhibitor-cofactor binding pocket; inhibition site 555778000672 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778000673 catalytic residue [active] 555778000674 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 555778000675 active site 555778000676 NTP binding site [chemical binding]; other site 555778000677 metal binding triad [ion binding]; metal-binding site 555778000678 antibiotic binding site [chemical binding]; other site 555778000679 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 555778000680 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 555778000681 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 555778000682 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 555778000683 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 555778000684 putative active site [active] 555778000685 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 555778000686 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 555778000687 trimer interface [polypeptide binding]; other site 555778000688 active site 555778000689 substrate binding site [chemical binding]; other site 555778000690 CoA binding site [chemical binding]; other site 555778000691 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 555778000692 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 555778000693 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 555778000694 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778000695 homodimer interface [polypeptide binding]; other site 555778000696 catalytic residue [active] 555778000697 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 555778000698 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 555778000699 dimer interface [polypeptide binding]; other site 555778000700 META domain; Region: META; pfam03724 555778000701 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 555778000702 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 555778000703 P-loop; other site 555778000704 Magnesium ion binding site [ion binding]; other site 555778000705 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 555778000706 Magnesium ion binding site [ion binding]; other site 555778000707 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 555778000708 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 555778000709 active site 555778000710 phosphorylation site [posttranslational modification] 555778000711 intermolecular recognition site; other site 555778000712 dimerization interface [polypeptide binding]; other site 555778000713 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 555778000714 Walker A motif; other site 555778000715 ATP binding site [chemical binding]; other site 555778000716 Walker B motif; other site 555778000717 arginine finger; other site 555778000718 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 555778000719 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 555778000720 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 555778000721 dimer interface [polypeptide binding]; other site 555778000722 phosphorylation site [posttranslational modification] 555778000723 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 555778000724 ATP binding site [chemical binding]; other site 555778000725 Mg2+ binding site [ion binding]; other site 555778000726 G-X-G motif; other site 555778000727 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 555778000728 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 555778000729 ATP-grasp domain; Region: ATP-grasp; pfam02222 555778000730 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 555778000731 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 555778000732 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes SLAC1 (Slow Anion Channel-Associated 1); Region: TDT_SLAC1_like; cd09323 555778000733 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 555778000734 gating phenylalanine in ion channel; other site 555778000735 Predicted membrane protein [Function unknown]; Region: COG3235 555778000736 Cytochrome c; Region: Cytochrom_C; pfam00034 555778000737 transcriptional regulator PhoU; Provisional; Region: PRK11115 555778000738 PhoU domain; Region: PhoU; pfam01895 555778000739 PhoU domain; Region: PhoU; pfam01895 555778000740 polyphosphate kinase; Provisional; Region: PRK05443 555778000741 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 555778000742 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 555778000743 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 555778000744 putative domain interface [polypeptide binding]; other site 555778000745 putative active site [active] 555778000746 catalytic site [active] 555778000747 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 555778000748 putative domain interface [polypeptide binding]; other site 555778000749 putative active site [active] 555778000750 catalytic site [active] 555778000751 gamma-glutamyl kinase; Provisional; Region: PRK05429 555778000752 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 555778000753 nucleotide binding site [chemical binding]; other site 555778000754 homotetrameric interface [polypeptide binding]; other site 555778000755 putative phosphate binding site [ion binding]; other site 555778000756 putative allosteric binding site; other site 555778000757 PUA domain; Region: PUA; pfam01472 555778000758 Obg family GTPase CgtA; Region: Obg_CgtA; TIGR02729 555778000759 GTP1/OBG; Region: GTP1_OBG; pfam01018 555778000760 Obg GTPase; Region: Obg; cd01898 555778000761 G1 box; other site 555778000762 GTP/Mg2+ binding site [chemical binding]; other site 555778000763 Switch I region; other site 555778000764 G2 box; other site 555778000765 G3 box; other site 555778000766 Switch II region; other site 555778000767 G4 box; other site 555778000768 G5 box; other site 555778000769 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 555778000770 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 555778000771 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 555778000772 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 555778000773 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 555778000774 Multicopper oxidase; Region: Cu-oxidase; pfam00394 555778000775 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 555778000776 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 555778000777 Short C-terminal domain; Region: SHOCT; pfam09851 555778000778 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 555778000779 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 555778000780 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 555778000781 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 555778000782 Outer membrane efflux protein; Region: OEP; pfam02321 555778000783 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 555778000784 HlyD family secretion protein; Region: HlyD_3; pfam13437 555778000785 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 555778000786 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 555778000787 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 555778000788 Family description; Region: DsbD_2; pfam13386 555778000789 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 555778000790 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 555778000791 ATP binding site [chemical binding]; other site 555778000792 putative Mg++ binding site [ion binding]; other site 555778000793 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 555778000794 nucleotide binding region [chemical binding]; other site 555778000795 ATP-binding site [chemical binding]; other site 555778000796 Helicase associated domain (HA2); Region: HA2; pfam04408 555778000797 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 555778000798 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 555778000799 Protein of unknown function (DUF3024); Region: DUF3024; pfam11225 555778000800 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 555778000801 Uncharacterized protein family (UPF0156); Region: RHH_2; pfam03693 555778000802 Anti-sigma-K factor rskA; Region: RskA; pfam10099 555778000803 RNA polymerase sigma factor; Provisional; Region: PRK12534 555778000804 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 555778000805 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 555778000806 DNA binding residues [nucleotide binding] 555778000807 hypothetical protein; Provisional; Region: PRK05409 555778000808 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 555778000809 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 555778000810 Protein of unknown function, DUF255; Region: DUF255; pfam03190 555778000811 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 555778000812 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 555778000813 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 555778000814 Phosphotransferase enzyme family; Region: APH; pfam01636 555778000815 active site 555778000816 ATP binding site [chemical binding]; other site 555778000817 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 555778000818 substrate binding site [chemical binding]; other site 555778000819 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 555778000820 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 555778000821 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 555778000822 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 555778000823 ATP binding site [chemical binding]; other site 555778000824 putative Mg++ binding site [ion binding]; other site 555778000825 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 555778000826 nucleotide binding region [chemical binding]; other site 555778000827 ATP-binding site [chemical binding]; other site 555778000828 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 555778000829 HRDC domain; Region: HRDC; pfam00570 555778000830 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 555778000831 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 555778000832 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 555778000833 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 555778000834 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 555778000835 Arabinofuranosyltransferase A C terminal; Region: AftA_C; pfam12249 555778000836 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 555778000837 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 555778000838 catalytic residues [active] 555778000839 Predicted permeases [General function prediction only]; Region: COG0679 555778000840 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 555778000841 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 555778000842 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 555778000843 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 555778000844 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 555778000845 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 555778000846 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 555778000847 Type III pantothenate kinase; Region: Pan_kinase; pfam03309 555778000848 elongation factor Tu; Reviewed; Region: PRK00049 555778000849 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 555778000850 G1 box; other site 555778000851 GEF interaction site [polypeptide binding]; other site 555778000852 GTP/Mg2+ binding site [chemical binding]; other site 555778000853 Switch I region; other site 555778000854 G2 box; other site 555778000855 G3 box; other site 555778000856 Switch II region; other site 555778000857 G4 box; other site 555778000858 G5 box; other site 555778000859 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 555778000860 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 555778000861 Antibiotic Binding Site [chemical binding]; other site 555778000862 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 555778000863 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 555778000864 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 555778000865 putative homodimer interface [polypeptide binding]; other site 555778000866 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 555778000867 heterodimer interface [polypeptide binding]; other site 555778000868 homodimer interface [polypeptide binding]; other site 555778000869 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 555778000870 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 555778000871 23S rRNA interface [nucleotide binding]; other site 555778000872 L7/L12 interface [polypeptide binding]; other site 555778000873 putative thiostrepton binding site; other site 555778000874 L25 interface [polypeptide binding]; other site 555778000875 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 555778000876 mRNA/rRNA interface [nucleotide binding]; other site 555778000877 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 555778000878 23S rRNA interface [nucleotide binding]; other site 555778000879 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 555778000880 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 555778000881 core dimer interface [polypeptide binding]; other site 555778000882 peripheral dimer interface [polypeptide binding]; other site 555778000883 L10 interface [polypeptide binding]; other site 555778000884 L11 interface [polypeptide binding]; other site 555778000885 putative EF-Tu interaction site [polypeptide binding]; other site 555778000886 putative EF-G interaction site [polypeptide binding]; other site 555778000887 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 555778000888 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 555778000889 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 555778000890 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 555778000891 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 555778000892 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 555778000893 RPB3 interaction site [polypeptide binding]; other site 555778000894 RPB1 interaction site [polypeptide binding]; other site 555778000895 RPB11 interaction site [polypeptide binding]; other site 555778000896 RPB10 interaction site [polypeptide binding]; other site 555778000897 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 555778000898 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 555778000899 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 555778000900 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 555778000901 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 555778000902 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 555778000903 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 555778000904 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 555778000905 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 555778000906 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 555778000907 DNA binding site [nucleotide binding] 555778000908 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 555778000909 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 555778000910 S17 interaction site [polypeptide binding]; other site 555778000911 S8 interaction site; other site 555778000912 16S rRNA interaction site [nucleotide binding]; other site 555778000913 streptomycin interaction site [chemical binding]; other site 555778000914 23S rRNA interaction site [nucleotide binding]; other site 555778000915 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 555778000916 30S ribosomal protein S7; Validated; Region: PRK05302 555778000917 elongation factor G; Reviewed; Region: PRK00007 555778000918 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 555778000919 G1 box; other site 555778000920 putative GEF interaction site [polypeptide binding]; other site 555778000921 GTP/Mg2+ binding site [chemical binding]; other site 555778000922 Switch I region; other site 555778000923 G2 box; other site 555778000924 G3 box; other site 555778000925 Switch II region; other site 555778000926 G4 box; other site 555778000927 G5 box; other site 555778000928 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 555778000929 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 555778000930 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 555778000931 elongation factor Tu; Reviewed; Region: PRK00049 555778000932 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 555778000933 G1 box; other site 555778000934 GEF interaction site [polypeptide binding]; other site 555778000935 GTP/Mg2+ binding site [chemical binding]; other site 555778000936 Switch I region; other site 555778000937 G2 box; other site 555778000938 G3 box; other site 555778000939 Switch II region; other site 555778000940 G4 box; other site 555778000941 G5 box; other site 555778000942 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 555778000943 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 555778000944 Antibiotic Binding Site [chemical binding]; other site 555778000945 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 555778000946 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 555778000947 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 555778000948 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 555778000949 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 555778000950 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 555778000951 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 555778000952 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 555778000953 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 555778000954 putative translocon binding site; other site 555778000955 protein-rRNA interface [nucleotide binding]; other site 555778000956 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 555778000957 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 555778000958 G-X-X-G motif; other site 555778000959 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 555778000960 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 555778000961 23S rRNA interface [nucleotide binding]; other site 555778000962 5S rRNA interface [nucleotide binding]; other site 555778000963 putative antibiotic binding site [chemical binding]; other site 555778000964 L25 interface [polypeptide binding]; other site 555778000965 L27 interface [polypeptide binding]; other site 555778000966 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 555778000967 23S rRNA interface [nucleotide binding]; other site 555778000968 putative translocon interaction site; other site 555778000969 signal recognition particle (SRP54) interaction site; other site 555778000970 L23 interface [polypeptide binding]; other site 555778000971 trigger factor interaction site; other site 555778000972 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 555778000973 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 555778000974 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 555778000975 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 555778000976 RNA binding site [nucleotide binding]; other site 555778000977 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 555778000978 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 555778000979 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 555778000980 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 555778000981 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 555778000982 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 555778000983 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 555778000984 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 555778000985 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 555778000986 23S rRNA interface [nucleotide binding]; other site 555778000987 5S rRNA interface [nucleotide binding]; other site 555778000988 L27 interface [polypeptide binding]; other site 555778000989 L5 interface [polypeptide binding]; other site 555778000990 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 555778000991 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 555778000992 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 555778000993 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 555778000994 23S rRNA binding site [nucleotide binding]; other site 555778000995 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 555778000996 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 555778000997 SecY translocase; Region: SecY; pfam00344 555778000998 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 555778000999 30S ribosomal protein S13; Region: bact_S13; TIGR03631 555778001000 30S ribosomal protein S11; Validated; Region: PRK05309 555778001001 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 555778001002 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 555778001003 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 555778001004 RNA binding surface [nucleotide binding]; other site 555778001005 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 555778001006 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 555778001007 alphaNTD homodimer interface [polypeptide binding]; other site 555778001008 alphaNTD - beta interaction site [polypeptide binding]; other site 555778001009 alphaNTD - beta' interaction site [polypeptide binding]; other site 555778001010 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 555778001011 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 555778001012 excinuclease ABC subunit B; Provisional; Region: PRK05298 555778001013 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 555778001014 ATP binding site [chemical binding]; other site 555778001015 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 555778001016 nucleotide binding region [chemical binding]; other site 555778001017 ATP-binding site [chemical binding]; other site 555778001018 Ultra-violet resistance protein B; Region: UvrB; pfam12344 555778001019 UvrB/uvrC motif; Region: UVR; pfam02151 555778001020 ribonuclease R; Region: RNase_R; TIGR02063 555778001021 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 555778001022 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 555778001023 RNB domain; Region: RNB; pfam00773 555778001024 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 555778001025 RNA binding site [nucleotide binding]; other site 555778001026 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 555778001027 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 555778001028 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 555778001029 aspartate aminotransferase; Provisional; Region: PRK05764 555778001030 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 555778001031 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778001032 homodimer interface [polypeptide binding]; other site 555778001033 catalytic residue [active] 555778001034 recombinase A; Provisional; Region: recA; PRK09354 555778001035 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 555778001036 hexamer interface [polypeptide binding]; other site 555778001037 Walker A motif; other site 555778001038 ATP binding site [chemical binding]; other site 555778001039 Walker B motif; other site 555778001040 recombination regulator RecX; Reviewed; Region: recX; PRK00117 555778001041 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 555778001042 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 555778001043 motif 1; other site 555778001044 active site 555778001045 motif 2; other site 555778001046 motif 3; other site 555778001047 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 555778001048 DHHA1 domain; Region: DHHA1; pfam02272 555778001049 aspartate kinase; Reviewed; Region: PRK06635 555778001050 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 555778001051 putative nucleotide binding site [chemical binding]; other site 555778001052 putative catalytic residues [active] 555778001053 putative Mg ion binding site [ion binding]; other site 555778001054 putative aspartate binding site [chemical binding]; other site 555778001055 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 555778001056 putative allosteric regulatory site; other site 555778001057 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 555778001058 carbon storage regulator; Provisional; Region: PRK01712 555778001059 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 555778001060 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 555778001061 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 555778001062 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 555778001063 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 555778001064 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 555778001065 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 555778001066 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 555778001067 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 555778001068 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 555778001069 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 555778001070 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 555778001071 haemagglutination activity domain; Region: Haemagg_act; pfam05860 555778001072 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 555778001073 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 555778001074 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 555778001075 ADP-ribosyl cyclase, also known as cyclic ADP-ribose hydrolase or CD38; Region: Rib_hydrolase; cl08346 555778001076 NAD binding site [chemical binding]; other site 555778001077 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 555778001078 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 555778001079 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 555778001080 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 555778001081 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 555778001082 non-specific DNA binding site [nucleotide binding]; other site 555778001083 salt bridge; other site 555778001084 sequence-specific DNA binding site [nucleotide binding]; other site 555778001085 Domain of unknown function DUF302; Region: DUF302; cl01364 555778001086 Flagellin N-methylase; Region: FliB; pfam03692 555778001087 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 555778001088 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 555778001089 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 555778001090 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 555778001091 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 555778001092 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 555778001093 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 555778001094 G1 box; other site 555778001095 putative GEF interaction site [polypeptide binding]; other site 555778001096 GTP/Mg2+ binding site [chemical binding]; other site 555778001097 Switch I region; other site 555778001098 G2 box; other site 555778001099 G3 box; other site 555778001100 Switch II region; other site 555778001101 G4 box; other site 555778001102 G5 box; other site 555778001103 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 555778001104 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 555778001105 signal recognition particle protein; Provisional; Region: PRK10867 555778001106 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 555778001107 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 555778001108 P loop; other site 555778001109 GTP binding site [chemical binding]; other site 555778001110 Signal peptide binding domain; Region: SRP_SPB; pfam02978 555778001111 trigger factor; Provisional; Region: tig; PRK01490 555778001112 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 555778001113 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 555778001114 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 555778001115 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 555778001116 oligomer interface [polypeptide binding]; other site 555778001117 active site residues [active] 555778001118 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 555778001119 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 555778001120 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 555778001121 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 555778001122 Walker A motif; other site 555778001123 ATP binding site [chemical binding]; other site 555778001124 Walker B motif; other site 555778001125 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 555778001126 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 555778001127 Found in ATP-dependent protease La (LON); Region: LON; smart00464 555778001128 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 555778001129 Walker A motif; other site 555778001130 ATP binding site [chemical binding]; other site 555778001131 Walker B motif; other site 555778001132 arginine finger; other site 555778001133 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 555778001134 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 555778001135 IHF dimer interface [polypeptide binding]; other site 555778001136 IHF - DNA interface [nucleotide binding]; other site 555778001137 SurA N-terminal domain; Region: SurA_N_3; cl07813 555778001138 periplasmic folding chaperone; Provisional; Region: PRK10788 555778001139 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 555778001140 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 555778001141 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 555778001142 NAD binding site [chemical binding]; other site 555778001143 homotetramer interface [polypeptide binding]; other site 555778001144 homodimer interface [polypeptide binding]; other site 555778001145 substrate binding site [chemical binding]; other site 555778001146 active site 555778001147 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 555778001148 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 555778001149 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 555778001150 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 555778001151 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 555778001152 dimer interface [polypeptide binding]; other site 555778001153 conserved gate region; other site 555778001154 putative PBP binding loops; other site 555778001155 ABC-ATPase subunit interface; other site 555778001156 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 555778001157 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 555778001158 dimer interface [polypeptide binding]; other site 555778001159 conserved gate region; other site 555778001160 putative PBP binding loops; other site 555778001161 ABC-ATPase subunit interface; other site 555778001162 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 555778001163 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 555778001164 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 555778001165 Protein of unknown function (DUF1255); Region: DUF1255; cl01202 555778001166 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 555778001167 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 555778001168 HD domain; Region: HD_5; pfam13487 555778001169 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 555778001170 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 555778001171 Zn2+ binding site [ion binding]; other site 555778001172 Mg2+ binding site [ion binding]; other site 555778001173 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 555778001174 DHH family; Region: DHH; pfam01368 555778001175 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 555778001176 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 555778001177 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 555778001178 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 555778001179 intersubunit interface [polypeptide binding]; other site 555778001180 active site 555778001181 zinc binding site [ion binding]; other site 555778001182 Na+ binding site [ion binding]; other site 555778001183 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 555778001184 pyruvate kinase; Provisional; Region: PRK05826 555778001185 domain interfaces; other site 555778001186 active site 555778001187 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 555778001188 Phosphoglycerate kinase; Region: PGK; pfam00162 555778001189 substrate binding site [chemical binding]; other site 555778001190 hinge regions; other site 555778001191 ADP binding site [chemical binding]; other site 555778001192 catalytic site [active] 555778001193 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 555778001194 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 555778001195 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 555778001196 transketolase; Reviewed; Region: PRK12753 555778001197 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 555778001198 TPP-binding site [chemical binding]; other site 555778001199 dimer interface [polypeptide binding]; other site 555778001200 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 555778001201 PYR/PP interface [polypeptide binding]; other site 555778001202 dimer interface [polypeptide binding]; other site 555778001203 TPP binding site [chemical binding]; other site 555778001204 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 555778001205 putative catalytic residue [active] 555778001206 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 555778001207 Homeodomain-like domain; Region: HTH_23; pfam13384 555778001208 Winged helix-turn helix; Region: HTH_29; pfam13551 555778001209 Homeodomain-like domain; Region: HTH_32; pfam13565 555778001210 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 555778001211 DDE superfamily endonuclease; Region: DDE_3; pfam13358 555778001212 S-adenosylmethionine synthetase; Validated; Region: PRK05250 555778001213 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 555778001214 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 555778001215 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 555778001216 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 555778001217 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 555778001218 homotetramer interface [polypeptide binding]; other site 555778001219 ligand binding site [chemical binding]; other site 555778001220 catalytic site [active] 555778001221 NAD binding site [chemical binding]; other site 555778001222 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 555778001223 FAD binding site [chemical binding]; other site 555778001224 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 555778001225 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 555778001226 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 555778001227 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK07030 555778001228 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 555778001229 inhibitor-cofactor binding pocket; inhibition site 555778001230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778001231 catalytic residue [active] 555778001232 RNA methyltransferase, RsmE family; Region: TIGR00046 555778001233 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 555778001234 peptide chain release factor 2; Validated; Region: prfB; PRK00578 555778001235 This domain is found in peptide chain release factors; Region: PCRF; smart00937 555778001236 RF-1 domain; Region: RF-1; pfam00472 555778001237 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 555778001238 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 555778001239 dimer interface [polypeptide binding]; other site 555778001240 putative anticodon binding site; other site 555778001241 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 555778001242 motif 1; other site 555778001243 active site 555778001244 motif 2; other site 555778001245 motif 3; other site 555778001246 Domain of unknown function DUF59; Region: DUF59; pfam01883 555778001247 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 555778001248 Soluble P-type ATPase [General function prediction only]; Region: COG4087 555778001249 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 555778001250 dimer interface [polypeptide binding]; other site 555778001251 catalytic triad [active] 555778001252 peroxidatic and resolving cysteines [active] 555778001253 fructokinase; Reviewed; Region: PRK09557 555778001254 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 555778001255 nucleotide binding site [chemical binding]; other site 555778001256 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 555778001257 arsenical pump membrane protein; Provisional; Region: PRK15445 555778001258 transmembrane helices; other site 555778001259 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 555778001260 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 555778001261 generic binding surface II; other site 555778001262 generic binding surface I; other site 555778001263 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 555778001264 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 555778001265 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 555778001266 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 555778001267 Walker A motif; other site 555778001268 ATP binding site [chemical binding]; other site 555778001269 Walker B motif; other site 555778001270 arginine finger; other site 555778001271 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 555778001272 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 555778001273 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 555778001274 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 555778001275 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 555778001276 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 555778001277 MgtE intracellular N domain; Region: MgtE_N; smart00924 555778001278 FliG C-terminal domain; Region: FliG_C; pfam01706 555778001279 Flagellar assembly protein FliH; Region: FliH; pfam02108 555778001280 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 555778001281 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 555778001282 Walker A motif/ATP binding site; other site 555778001283 Walker B motif; other site 555778001284 Flagellar FliJ protein; Region: FliJ; pfam02050 555778001285 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 555778001286 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 555778001287 H-NS histone family; Region: Histone_HNS; pfam00816 555778001288 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 555778001289 cell division protein MraZ; Reviewed; Region: PRK00326 555778001290 MraZ protein; Region: MraZ; pfam02381 555778001291 MraZ protein; Region: MraZ; pfam02381 555778001292 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 555778001293 MraW methylase family; Region: Methyltransf_5; cl17771 555778001294 Cell division protein FtsL; Region: FtsL; cl11433 555778001295 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 555778001296 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 555778001297 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 555778001298 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 555778001299 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 555778001300 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 555778001301 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 555778001302 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 555778001303 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 555778001304 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 555778001305 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 555778001306 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 555778001307 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 555778001308 Mg++ binding site [ion binding]; other site 555778001309 putative catalytic motif [active] 555778001310 putative substrate binding site [chemical binding]; other site 555778001311 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 555778001312 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 555778001313 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 555778001314 cell division protein FtsW; Region: ftsW; TIGR02614 555778001315 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 555778001316 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 555778001317 active site 555778001318 homodimer interface [polypeptide binding]; other site 555778001319 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 555778001320 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 555778001321 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 555778001322 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 555778001323 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 555778001324 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 555778001325 ATP-grasp domain; Region: ATP-grasp_4; cl17255 555778001326 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 555778001327 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 555778001328 Cell division protein FtsQ; Region: FtsQ; pfam03799 555778001329 cell division protein FtsA; Region: ftsA; TIGR01174 555778001330 Cell division protein FtsA; Region: FtsA; smart00842 555778001331 Cell division protein FtsA; Region: FtsA; pfam14450 555778001332 cell division protein FtsZ; Validated; Region: PRK09330 555778001333 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 555778001334 nucleotide binding site [chemical binding]; other site 555778001335 SulA interaction site; other site 555778001336 RES domain; Region: RES; cl02411 555778001337 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 555778001338 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 555778001339 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 555778001340 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 555778001341 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 555778001342 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 555778001343 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 555778001344 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 555778001345 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 555778001346 DNA binding residues [nucleotide binding] 555778001347 DNA primase; Validated; Region: dnaG; PRK05667 555778001348 CHC2 zinc finger; Region: zf-CHC2; pfam01807 555778001349 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 555778001350 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 555778001351 active site 555778001352 metal binding site [ion binding]; metal-binding site 555778001353 interdomain interaction site; other site 555778001354 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 555778001355 Sel1 repeat; Region: Sel1; pfam08238 555778001356 Sel1-like repeats; Region: SEL1; smart00671 555778001357 Sel1-like repeats; Region: SEL1; smart00671 555778001358 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 555778001359 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 555778001360 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 555778001361 putative active site [active] 555778001362 catalytic site [active] 555778001363 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 555778001364 putative active site [active] 555778001365 catalytic site [active] 555778001366 short chain dehydrogenase; Provisional; Region: PRK05993 555778001367 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 555778001368 NADP binding site [chemical binding]; other site 555778001369 active site 555778001370 steroid binding site; other site 555778001371 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 555778001372 YccA-like proteins; Region: YccA_like; cd10433 555778001373 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 555778001374 FOG: CBS domain [General function prediction only]; Region: COG0517 555778001375 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 555778001376 HPP family; Region: HPP; pfam04982 555778001377 CHASE3 domain; Region: CHASE3; cl05000 555778001378 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 555778001379 dimerization interface [polypeptide binding]; other site 555778001380 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 555778001381 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 555778001382 dimer interface [polypeptide binding]; other site 555778001383 putative CheW interface [polypeptide binding]; other site 555778001384 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 555778001385 putative uracil binding site [chemical binding]; other site 555778001386 putative active site [active] 555778001387 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 555778001388 Uncharacterized conserved protein [Function unknown]; Region: COG2928 555778001389 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 555778001390 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 555778001391 dimer interface [polypeptide binding]; other site 555778001392 anticodon binding site; other site 555778001393 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 555778001394 homodimer interface [polypeptide binding]; other site 555778001395 motif 1; other site 555778001396 active site 555778001397 motif 2; other site 555778001398 GAD domain; Region: GAD; pfam02938 555778001399 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 555778001400 motif 3; other site 555778001401 quinolinate synthetase; Provisional; Region: PRK09375 555778001402 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 555778001403 TrkA-N domain; Region: TrkA_N; pfam02254 555778001404 integrase; Provisional; Region: PRK09692 555778001405 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 555778001406 active site 555778001407 Int/Topo IB signature motif; other site 555778001408 Transposase domain (DUF772); Region: DUF772; pfam05598 555778001409 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 555778001410 DDE superfamily endonuclease; Region: DDE_4; cl17710 555778001411 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 555778001412 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 555778001413 Protein of unknown function (DUF3991); Region: DUF3991; pfam13154 555778001414 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; cd00188 555778001415 active site 555778001416 metal binding site [ion binding]; metal-binding site 555778001417 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 555778001418 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 555778001419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 555778001420 NAD(P) binding site [chemical binding]; other site 555778001421 active site 555778001422 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 555778001423 GAF domain; Region: GAF; pfam01590 555778001424 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 555778001425 GAF domain; Region: GAF; pfam01590 555778001426 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 555778001427 PAS domain; Region: PAS_9; pfam13426 555778001428 putative active site [active] 555778001429 heme pocket [chemical binding]; other site 555778001430 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 555778001431 GAF domain; Region: GAF; pfam01590 555778001432 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778001433 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778001434 metal binding site [ion binding]; metal-binding site 555778001435 active site 555778001436 I-site; other site 555778001437 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 555778001438 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 555778001439 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 555778001440 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 555778001441 Walker A/P-loop; other site 555778001442 ATP binding site [chemical binding]; other site 555778001443 Q-loop/lid; other site 555778001444 ABC transporter signature motif; other site 555778001445 Walker B; other site 555778001446 D-loop; other site 555778001447 H-loop/switch region; other site 555778001448 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 555778001449 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 555778001450 Substrate binding site; other site 555778001451 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 555778001452 phosphomannomutase CpsG; Provisional; Region: PRK15414 555778001453 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 555778001454 active site 555778001455 substrate binding site [chemical binding]; other site 555778001456 metal binding site [ion binding]; metal-binding site 555778001457 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 555778001458 active site 555778001459 Domain of unknown function (DUF4214); Region: DUF4214; pfam13946 555778001460 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 555778001461 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 555778001462 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 555778001463 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 555778001464 NADP-binding site; other site 555778001465 homotetramer interface [polypeptide binding]; other site 555778001466 substrate binding site [chemical binding]; other site 555778001467 homodimer interface [polypeptide binding]; other site 555778001468 active site 555778001469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 555778001470 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 555778001471 NAD(P) binding site [chemical binding]; other site 555778001472 active site 555778001473 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 555778001474 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 555778001475 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 555778001476 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_4; cd03795 555778001477 putative ADP-binding pocket [chemical binding]; other site 555778001478 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 555778001479 Bacterial sugar transferase; Region: Bac_transf; pfam02397 555778001480 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 555778001481 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 555778001482 Substrate binding site; other site 555778001483 metal-binding site 555778001484 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 555778001485 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 555778001486 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 555778001487 S-adenosylmethionine binding site [chemical binding]; other site 555778001488 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 555778001489 ThiC-associated domain; Region: ThiC-associated; pfam13667 555778001490 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 555778001491 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 555778001492 catalytic triad [active] 555778001493 dimer interface [polypeptide binding]; other site 555778001494 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 555778001495 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 555778001496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 555778001497 BolA-like protein; Region: BolA; cl00386 555778001498 ribonuclease D; Region: rnd; TIGR01388 555778001499 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 555778001500 catalytic site [active] 555778001501 putative active site [active] 555778001502 putative substrate binding site [chemical binding]; other site 555778001503 HRDC domain; Region: HRDC; cl02578 555778001504 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 555778001505 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 555778001506 substrate binding site [chemical binding]; other site 555778001507 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 555778001508 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 555778001509 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 555778001510 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 555778001511 ApbE family; Region: ApbE; pfam02424 555778001512 glutathione synthetase; Provisional; Region: PRK05246 555778001513 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 555778001514 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 555778001515 Glutamate-cysteine ligase; Region: GshA; pfam08886 555778001516 Response regulator receiver domain; Region: Response_reg; pfam00072 555778001517 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 555778001518 active site 555778001519 phosphorylation site [posttranslational modification] 555778001520 intermolecular recognition site; other site 555778001521 dimerization interface [polypeptide binding]; other site 555778001522 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; cd00588 555778001523 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 555778001524 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 555778001525 dimer interface [polypeptide binding]; other site 555778001526 putative CheW interface [polypeptide binding]; other site 555778001527 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 555778001528 putative binding surface; other site 555778001529 active site 555778001530 Hpt domain; Region: Hpt; pfam01627 555778001531 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 555778001532 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 555778001533 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 555778001534 ATP binding site [chemical binding]; other site 555778001535 Mg2+ binding site [ion binding]; other site 555778001536 G-X-G motif; other site 555778001537 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 555778001538 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 555778001539 Response regulator receiver domain; Region: Response_reg; pfam00072 555778001540 active site 555778001541 phosphorylation site [posttranslational modification] 555778001542 intermolecular recognition site; other site 555778001543 dimerization interface [polypeptide binding]; other site 555778001544 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 555778001545 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 555778001546 N-terminal plug; other site 555778001547 ligand-binding site [chemical binding]; other site 555778001548 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 555778001549 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 555778001550 dimer interface [polypeptide binding]; other site 555778001551 ADP-ribose binding site [chemical binding]; other site 555778001552 active site 555778001553 nudix motif; other site 555778001554 metal binding site [ion binding]; metal-binding site 555778001555 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 555778001556 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 555778001557 active site 555778001558 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 555778001559 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 555778001560 glutamine binding [chemical binding]; other site 555778001561 catalytic triad [active] 555778001562 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 555778001563 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 555778001564 putative substrate translocation pore; other site 555778001565 hypothetical protein; Validated; Region: PRK00110 555778001566 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 555778001567 active site 555778001568 putative DNA-binding cleft [nucleotide binding]; other site 555778001569 dimer interface [polypeptide binding]; other site 555778001570 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 555778001571 RuvA N terminal domain; Region: RuvA_N; pfam01330 555778001572 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 555778001573 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 555778001574 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 555778001575 Walker A motif; other site 555778001576 ATP binding site [chemical binding]; other site 555778001577 Walker B motif; other site 555778001578 arginine finger; other site 555778001579 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 555778001580 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 555778001581 active site 555778001582 TolQ protein; Region: tolQ; TIGR02796 555778001583 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 555778001584 TolR protein; Region: tolR; TIGR02801 555778001585 TonB C terminal; Region: TonB_2; pfam13103 555778001586 TolA protein; Region: tolA_full; TIGR02794 555778001587 translocation protein TolB; Provisional; Region: tolB; PRK04922 555778001588 TolB amino-terminal domain; Region: TolB_N; pfam04052 555778001589 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 555778001590 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 555778001591 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 555778001592 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 555778001593 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 555778001594 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 555778001595 binding surface 555778001596 TPR motif; other site 555778001597 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 555778001598 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 555778001599 FeS/SAM binding site; other site 555778001600 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 555778001601 Ligand Binding Site [chemical binding]; other site 555778001602 Cytochrome c; Region: Cytochrom_C; cl11414 555778001603 Cytochrome c; Region: Cytochrom_C; cl11414 555778001604 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 555778001605 nucleosidase; Provisional; Region: PRK05634 555778001606 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 555778001607 active site 555778001608 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 555778001609 Smr domain; Region: Smr; pfam01713 555778001610 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 555778001611 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 555778001612 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 555778001613 S-adenosylmethionine binding site [chemical binding]; other site 555778001614 Predicted membrane protein [Function unknown]; Region: COG1238 555778001615 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 555778001616 Peptidase family M23; Region: Peptidase_M23; pfam01551 555778001617 Predicted transcriptional regulator [Transcription]; Region: COG2378 555778001618 WYL domain; Region: WYL; pfam13280 555778001619 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 555778001620 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 555778001621 Cl binding site [ion binding]; other site 555778001622 oligomer interface [polypeptide binding]; other site 555778001623 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 555778001624 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 555778001625 S-adenosylmethionine binding site [chemical binding]; other site 555778001626 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 555778001627 metal binding site 2 [ion binding]; metal-binding site 555778001628 putative DNA binding helix; other site 555778001629 metal binding site 1 [ion binding]; metal-binding site 555778001630 dimer interface [polypeptide binding]; other site 555778001631 structural Zn2+ binding site [ion binding]; other site 555778001632 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 555778001633 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 555778001634 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 555778001635 active site residue [active] 555778001636 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 555778001637 active site residue [active] 555778001638 phosphoribulokinase; Provisional; Region: PRK15453 555778001639 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 555778001640 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 555778001641 ligand binding site [chemical binding]; other site 555778001642 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 555778001643 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 555778001644 GAF domain; Region: GAF_3; pfam13492 555778001645 GAF domain; Region: GAF_2; pfam13185 555778001646 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778001647 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778001648 metal binding site [ion binding]; metal-binding site 555778001649 active site 555778001650 I-site; other site 555778001651 elongation factor P; Validated; Region: PRK00529 555778001652 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 555778001653 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 555778001654 RNA binding site [nucleotide binding]; other site 555778001655 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 555778001656 RNA binding site [nucleotide binding]; other site 555778001657 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 555778001658 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 555778001659 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 555778001660 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 555778001661 ABC transporter ATPase component; Reviewed; Region: PRK11147 555778001662 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 555778001663 Walker A/P-loop; other site 555778001664 ATP binding site [chemical binding]; other site 555778001665 Q-loop/lid; other site 555778001666 ABC transporter signature motif; other site 555778001667 Walker B; other site 555778001668 D-loop; other site 555778001669 H-loop/switch region; other site 555778001670 ABC transporter; Region: ABC_tran_2; pfam12848 555778001671 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 555778001672 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 555778001673 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 555778001674 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 555778001675 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 555778001676 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 555778001677 DNA binding residues [nucleotide binding] 555778001678 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 555778001679 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 555778001680 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 555778001681 TolR protein; Region: tolR; TIGR02801 555778001682 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 555778001683 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 555778001684 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 555778001685 catecholate siderophore receptor Fiu; Provisional; Region: PRK09840 555778001686 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 555778001687 N-terminal plug; other site 555778001688 ligand-binding site [chemical binding]; other site 555778001689 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 555778001690 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 555778001691 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 555778001692 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 555778001693 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 555778001694 Flavodoxin; Region: Flavodoxin_1; pfam00258 555778001695 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 555778001696 FAD binding pocket [chemical binding]; other site 555778001697 conserved FAD binding motif [chemical binding]; other site 555778001698 phosphate binding motif [ion binding]; other site 555778001699 beta-alpha-beta structure motif; other site 555778001700 NAD binding pocket [chemical binding]; other site 555778001701 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 555778001702 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 555778001703 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 555778001704 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 555778001705 Ligand binding site; other site 555778001706 DXD motif; other site 555778001707 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 555778001708 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 555778001709 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 555778001710 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 555778001711 putative active site [active] 555778001712 putative PHP Thumb interface [polypeptide binding]; other site 555778001713 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 555778001714 generic binding surface II; other site 555778001715 generic binding surface I; other site 555778001716 Protein of unknown function (DUF465); Region: DUF465; cl01070 555778001717 Cytochrome c; Region: Cytochrom_C; pfam00034 555778001718 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 555778001719 Moco binding site; other site 555778001720 metal coordination site [ion binding]; other site 555778001721 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 555778001722 MoaE homodimer interface [polypeptide binding]; other site 555778001723 MoaD interaction [polypeptide binding]; other site 555778001724 active site residues [active] 555778001725 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 555778001726 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 555778001727 dimer interface [polypeptide binding]; other site 555778001728 putative functional site; other site 555778001729 putative MPT binding site; other site 555778001730 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 555778001731 trimer interface [polypeptide binding]; other site 555778001732 dimer interface [polypeptide binding]; other site 555778001733 putative active site [active] 555778001734 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 555778001735 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 555778001736 FeS/SAM binding site; other site 555778001737 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 555778001738 protoporphyrinogen oxidase; Region: PLN02576 555778001739 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 555778001740 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 555778001741 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 555778001742 putative NAD(P) binding site [chemical binding]; other site 555778001743 active site 555778001744 hypothetical protein; Provisional; Region: PRK05208 555778001745 Predicted membrane protein [Function unknown]; Region: COG3174 555778001746 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 555778001747 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 555778001748 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 555778001749 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 555778001750 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 555778001751 S-adenosylmethionine binding site [chemical binding]; other site 555778001752 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 555778001753 TrkA-N domain; Region: TrkA_N; pfam02254 555778001754 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778001755 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778001756 metal binding site [ion binding]; metal-binding site 555778001757 active site 555778001758 I-site; other site 555778001759 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 555778001760 Dihydroneopterin aldolase; Region: FolB; smart00905 555778001761 active site 555778001762 Uncharacterized conserved protein [Function unknown]; Region: COG1565 555778001763 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 555778001764 active site 555778001765 thiamine monophosphate kinase; Provisional; Region: PRK05731 555778001766 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 555778001767 ATP binding site [chemical binding]; other site 555778001768 dimerization interface [polypeptide binding]; other site 555778001769 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 555778001770 tetramer interfaces [polypeptide binding]; other site 555778001771 binuclear metal-binding site [ion binding]; other site 555778001772 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 555778001773 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 555778001774 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 555778001775 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 555778001776 active site 555778001777 GMP synthase; Reviewed; Region: guaA; PRK00074 555778001778 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 555778001779 AMP/PPi binding site [chemical binding]; other site 555778001780 candidate oxyanion hole; other site 555778001781 catalytic triad [active] 555778001782 potential glutamine specificity residues [chemical binding]; other site 555778001783 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 555778001784 ATP Binding subdomain [chemical binding]; other site 555778001785 Ligand Binding sites [chemical binding]; other site 555778001786 Dimerization subdomain; other site 555778001787 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 555778001788 nucleoside/Zn binding site; other site 555778001789 dimer interface [polypeptide binding]; other site 555778001790 catalytic motif [active] 555778001791 HsdM N-terminal domain; Region: HsdM_N; pfam12161 555778001792 Methyltransferase domain; Region: Methyltransf_26; pfam13659 555778001793 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 555778001794 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 555778001795 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 555778001796 Divergent AAA domain; Region: AAA_4; pfam04326 555778001797 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 555778001798 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 555778001799 DEAD-like helicases superfamily; Region: DEXDc; smart00487 555778001800 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 555778001801 ATP binding site [chemical binding]; other site 555778001802 putative Mg++ binding site [ion binding]; other site 555778001803 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 555778001804 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 555778001805 isocitrate dehydrogenase; Reviewed; Region: PRK07006 555778001806 isocitrate dehydrogenase; Validated; Region: PRK07362 555778001807 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 555778001808 oligomerisation interface [polypeptide binding]; other site 555778001809 mobile loop; other site 555778001810 roof hairpin; other site 555778001811 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 555778001812 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 555778001813 ring oligomerisation interface [polypeptide binding]; other site 555778001814 ATP/Mg binding site [chemical binding]; other site 555778001815 stacking interactions; other site 555778001816 hinge regions; other site 555778001817 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 555778001818 putative homodimer interface [polypeptide binding]; other site 555778001819 putative active site pocket [active] 555778001820 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 555778001821 flagellin; Provisional; Region: PRK12802 555778001822 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 555778001823 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 555778001824 FlaG protein; Region: FlaG; pfam03646 555778001825 flagellar capping protein; Reviewed; Region: fliD; PRK08032 555778001826 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 555778001827 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 555778001828 Flagellar protein FliS; Region: FliS; cl00654 555778001829 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 555778001830 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 555778001831 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 555778001832 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 555778001833 NAD binding site [chemical binding]; other site 555778001834 substrate binding site [chemical binding]; other site 555778001835 active site 555778001836 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 555778001837 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 555778001838 inhibitor-cofactor binding pocket; inhibition site 555778001839 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778001840 catalytic residue [active] 555778001841 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 555778001842 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 555778001843 active site 555778001844 homodimer interface [polypeptide binding]; other site 555778001845 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 555778001846 NeuB family; Region: NeuB; pfam03102 555778001847 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 555778001848 NeuB binding interface [polypeptide binding]; other site 555778001849 putative substrate binding site [chemical binding]; other site 555778001850 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 555778001851 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 555778001852 putative trimer interface [polypeptide binding]; other site 555778001853 putative CoA binding site [chemical binding]; other site 555778001854 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 555778001855 FOG: CBS domain [General function prediction only]; Region: COG0517 555778001856 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 555778001857 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 555778001858 Substrate binding site; other site 555778001859 metal-binding site 555778001860 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 555778001861 ligand binding site; other site 555778001862 tetramer interface; other site 555778001863 prolyl-tRNA synthetase; Provisional; Region: PRK09194 555778001864 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 555778001865 dimer interface [polypeptide binding]; other site 555778001866 motif 1; other site 555778001867 active site 555778001868 motif 2; other site 555778001869 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 555778001870 putative deacylase active site [active] 555778001871 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 555778001872 active site 555778001873 motif 3; other site 555778001874 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 555778001875 anticodon binding site; other site 555778001876 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 555778001877 Transcriptional regulator [Transcription]; Region: LysR; COG0583 555778001878 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 555778001879 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 555778001880 putative dimerization interface [polypeptide binding]; other site 555778001881 Domain of unknown function DUF302; Region: DUF302; pfam03625 555778001882 ACT domain; Region: ACT_6; pfam13740 555778001883 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 555778001884 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 555778001885 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 555778001886 catalytic triad [active] 555778001887 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 555778001888 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 555778001889 putative active site [active] 555778001890 PhoH-like protein; Region: PhoH; pfam02562 555778001891 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 555778001892 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 555778001893 THF binding site; other site 555778001894 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 555778001895 substrate binding site [chemical binding]; other site 555778001896 THF binding site; other site 555778001897 zinc-binding site [ion binding]; other site 555778001898 hypothetical protein; Provisional; Region: PRK09272 555778001899 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 555778001900 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 555778001901 substrate binding pocket [chemical binding]; other site 555778001902 ribonuclease T; Provisional; Region: PRK05168 555778001903 active site 555778001904 catalytic site [active] 555778001905 substrate binding site [chemical binding]; other site 555778001906 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 555778001907 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 555778001908 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 555778001909 homodimer interface [polypeptide binding]; other site 555778001910 NADP binding site [chemical binding]; other site 555778001911 substrate binding site [chemical binding]; other site 555778001912 Domain of unknown function (DUF389); Region: DUF389; cl00781 555778001913 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 555778001914 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 555778001915 TPR repeat; Region: TPR_11; pfam13414 555778001916 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 555778001917 binding surface 555778001918 TPR motif; other site 555778001919 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 555778001920 Transglycosylase; Region: Transgly; pfam00912 555778001921 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 555778001922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 555778001923 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 555778001924 AAA domain; Region: AAA_33; pfam13671 555778001925 active site 555778001926 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 555778001927 MutS domain I; Region: MutS_I; pfam01624 555778001928 MutS domain II; Region: MutS_II; pfam05188 555778001929 MutS domain III; Region: MutS_III; pfam05192 555778001930 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 555778001931 Walker A/P-loop; other site 555778001932 ATP binding site [chemical binding]; other site 555778001933 Q-loop/lid; other site 555778001934 ABC transporter signature motif; other site 555778001935 Walker B; other site 555778001936 D-loop; other site 555778001937 H-loop/switch region; other site 555778001938 septum site-determining protein MinC; Region: minC; TIGR01222 555778001939 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 555778001940 hypothetical protein; Provisional; Region: PRK05287 555778001941 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 555778001942 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 555778001943 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 555778001944 substrate binding pocket [chemical binding]; other site 555778001945 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 555778001946 B12 binding site [chemical binding]; other site 555778001947 cobalt ligand [ion binding]; other site 555778001948 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 555778001949 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 555778001950 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 555778001951 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 555778001952 putative substrate translocation pore; other site 555778001953 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 555778001954 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 555778001955 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 555778001956 HlyD family secretion protein; Region: HlyD_3; pfam13437 555778001957 transcriptional regulator SlyA; Provisional; Region: PRK03573 555778001958 MarR family; Region: MarR_2; pfam12802 555778001959 CTP synthetase; Validated; Region: pyrG; PRK05380 555778001960 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 555778001961 Catalytic site [active] 555778001962 active site 555778001963 UTP binding site [chemical binding]; other site 555778001964 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 555778001965 active site 555778001966 putative oxyanion hole; other site 555778001967 catalytic triad [active] 555778001968 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 555778001969 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 555778001970 enolase; Provisional; Region: eno; PRK00077 555778001971 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 555778001972 dimer interface [polypeptide binding]; other site 555778001973 metal binding site [ion binding]; metal-binding site 555778001974 substrate binding pocket [chemical binding]; other site 555778001975 Septum formation initiator; Region: DivIC; cl17659 555778001976 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 555778001977 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 555778001978 substrate binding site; other site 555778001979 dimer interface; other site 555778001980 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 555778001981 homotrimer interaction site [polypeptide binding]; other site 555778001982 zinc binding site [ion binding]; other site 555778001983 CDP-binding sites; other site 555778001984 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 555778001985 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 555778001986 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 555778001987 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 555778001988 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 555778001989 DsbD alpha interface [polypeptide binding]; other site 555778001990 catalytic residues [active] 555778001991 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 555778001992 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 555778001993 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 555778001994 FAD binding domain; Region: FAD_binding_4; pfam01565 555778001995 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 555778001996 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 555778001997 dimer interface [polypeptide binding]; other site 555778001998 active site 555778001999 hypothetical protein; Reviewed; Region: PRK12497 555778002000 LppC putative lipoprotein; Region: LppC; pfam04348 555778002001 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 555778002002 putative ligand binding site [chemical binding]; other site 555778002003 Predicted methyltransferases [General function prediction only]; Region: COG0313 555778002004 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 555778002005 putative SAM binding site [chemical binding]; other site 555778002006 putative homodimer interface [polypeptide binding]; other site 555778002007 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 555778002008 dimer interface [polypeptide binding]; other site 555778002009 active site 555778002010 catalytic residue [active] 555778002011 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 555778002012 argininosuccinate synthase; Provisional; Region: PRK13820 555778002013 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 555778002014 ANP binding site [chemical binding]; other site 555778002015 Substrate Binding Site II [chemical binding]; other site 555778002016 Substrate Binding Site I [chemical binding]; other site 555778002017 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 555778002018 PAS domain; Region: PAS_9; pfam13426 555778002019 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778002020 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778002021 metal binding site [ion binding]; metal-binding site 555778002022 active site 555778002023 I-site; other site 555778002024 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 555778002025 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 555778002026 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 555778002027 HIGH motif; other site 555778002028 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 555778002029 active site 555778002030 KMSKS motif; other site 555778002031 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 555778002032 PAS domain; Region: PAS_9; pfam13426 555778002033 putative active site [active] 555778002034 heme pocket [chemical binding]; other site 555778002035 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5304 555778002036 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 555778002037 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 555778002038 HI0933-like protein; Region: HI0933_like; pfam03486 555778002039 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 555778002040 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 555778002041 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 555778002042 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 555778002043 shikimate binding site; other site 555778002044 NAD(P) binding site [chemical binding]; other site 555778002045 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 555778002046 tetramer (dimer of dimers) interface [polypeptide binding]; other site 555778002047 dimer interface [polypeptide binding]; other site 555778002048 active site 555778002049 threonine dehydratase; Reviewed; Region: PRK09224 555778002050 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 555778002051 tetramer interface [polypeptide binding]; other site 555778002052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778002053 catalytic residue [active] 555778002054 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 555778002055 putative Ile/Val binding site [chemical binding]; other site 555778002056 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 555778002057 putative Ile/Val binding site [chemical binding]; other site 555778002058 EVE domain; Region: EVE; cl00728 555778002059 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 555778002060 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 555778002061 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 555778002062 S-adenosylmethionine binding site [chemical binding]; other site 555778002063 L-aspartate oxidase; Provisional; Region: PRK06175 555778002064 L-aspartate oxidase; Provisional; Region: PRK09077 555778002065 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 555778002066 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 555778002067 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 555778002068 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 555778002069 DNA binding residues [nucleotide binding] 555778002070 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 555778002071 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 555778002072 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778002073 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778002074 metal binding site [ion binding]; metal-binding site 555778002075 active site 555778002076 I-site; other site 555778002077 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 555778002078 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 555778002079 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 555778002080 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 555778002081 Flagellar biogenesis protein [Cell motility and secretion]; Region: FliO; COG3190 555778002082 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 555778002083 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 555778002084 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 555778002085 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 555778002086 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 555778002087 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 555778002088 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 555778002089 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 555778002090 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 555778002091 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 555778002092 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 555778002093 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 555778002094 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 555778002095 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 555778002096 DNA binding residues [nucleotide binding] 555778002097 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 555778002098 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 555778002099 active site 555778002100 phosphorylation site [posttranslational modification] 555778002101 intermolecular recognition site; other site 555778002102 dimerization interface [polypeptide binding]; other site 555778002103 Chemotaxis phosphatase, CheZ; Region: CheZ; cl01219 555778002104 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 555778002105 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 555778002106 putative binding surface; other site 555778002107 active site 555778002108 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 555778002109 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 555778002110 ATP binding site [chemical binding]; other site 555778002111 Mg2+ binding site [ion binding]; other site 555778002112 G-X-G motif; other site 555778002113 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 555778002114 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 555778002115 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 555778002116 active site 555778002117 phosphorylation site [posttranslational modification] 555778002118 intermolecular recognition site; other site 555778002119 CheB methylesterase; Region: CheB_methylest; pfam01339 555778002120 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 555778002121 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 555778002122 P-loop; other site 555778002123 Magnesium ion binding site [ion binding]; other site 555778002124 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 555778002125 Magnesium ion binding site [ion binding]; other site 555778002126 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 555778002127 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 555778002128 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 555778002129 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 555778002130 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 555778002131 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 555778002132 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 555778002133 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 555778002134 Protein of unknown function DUF58; Region: DUF58; pfam01882 555778002135 Domain of unknown function DUF20; Region: UPF0118; pfam01594 555778002136 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 555778002137 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 555778002138 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 555778002139 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 555778002140 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 555778002141 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 555778002142 motif II; other site 555778002143 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 555778002144 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 555778002145 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 555778002146 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 555778002147 active site 555778002148 tetramer interface; other site 555778002149 Predicted membrane protein (DUF2069); Region: DUF2069; cl01299 555778002150 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 555778002151 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 555778002152 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 555778002153 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 555778002154 catalytic residues [active] 555778002155 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 555778002156 catalytic residues [active] 555778002157 Outer membrane efflux protein; Region: OEP; pfam02321 555778002158 Outer membrane efflux protein; Region: OEP; pfam02321 555778002159 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 555778002160 HlyD family secretion protein; Region: HlyD_3; pfam13437 555778002161 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 555778002162 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 555778002163 active site 555778002164 dimer interface [polypeptide binding]; other site 555778002165 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 555778002166 Ligand Binding Site [chemical binding]; other site 555778002167 Molecular Tunnel; other site 555778002168 Uncharacterized conserved protein [Function unknown]; Region: COG4121 555778002169 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 555778002170 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 555778002171 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 555778002172 dimerization domain swap beta strand [polypeptide binding]; other site 555778002173 regulatory protein interface [polypeptide binding]; other site 555778002174 active site 555778002175 regulatory phosphorylation site [posttranslational modification]; other site 555778002176 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 555778002177 active pocket/dimerization site; other site 555778002178 active site 555778002179 phosphorylation site [posttranslational modification] 555778002180 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 555778002181 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 555778002182 Hpr binding site; other site 555778002183 active site 555778002184 homohexamer subunit interaction site [polypeptide binding]; other site 555778002185 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 555778002186 active site 555778002187 phosphorylation site [posttranslational modification] 555778002188 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 555778002189 30S subunit binding site; other site 555778002190 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 555778002191 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 555778002192 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 555778002193 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 555778002194 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 555778002195 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 555778002196 Walker A/P-loop; other site 555778002197 ATP binding site [chemical binding]; other site 555778002198 Q-loop/lid; other site 555778002199 ABC transporter signature motif; other site 555778002200 Walker B; other site 555778002201 D-loop; other site 555778002202 H-loop/switch region; other site 555778002203 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 555778002204 OstA-like protein; Region: OstA; pfam03968 555778002205 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 555778002206 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 555778002207 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 555778002208 active site 555778002209 motif I; other site 555778002210 motif II; other site 555778002211 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 555778002212 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 555778002213 putative active site [active] 555778002214 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 555778002215 Uncharacterized conserved protein [Function unknown]; Region: COG1262 555778002216 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 555778002217 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 555778002218 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 555778002219 Walker A/P-loop; other site 555778002220 ATP binding site [chemical binding]; other site 555778002221 Q-loop/lid; other site 555778002222 ABC transporter signature motif; other site 555778002223 Walker B; other site 555778002224 D-loop; other site 555778002225 H-loop/switch region; other site 555778002226 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 555778002227 Permease; Region: Permease; pfam02405 555778002228 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 555778002229 mce related protein; Region: MCE; pfam02470 555778002230 Outer membrane efflux protein; Region: OEP; pfam02321 555778002231 Outer membrane efflux protein; Region: OEP; pfam02321 555778002232 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 555778002233 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 555778002234 anti sigma factor interaction site; other site 555778002235 regulatory phosphorylation site [posttranslational modification]; other site 555778002236 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 555778002237 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 555778002238 hinge; other site 555778002239 active site 555778002240 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 555778002241 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 555778002242 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 555778002243 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 555778002244 NAD binding site [chemical binding]; other site 555778002245 dimerization interface [polypeptide binding]; other site 555778002246 product binding site; other site 555778002247 substrate binding site [chemical binding]; other site 555778002248 zinc binding site [ion binding]; other site 555778002249 catalytic residues [active] 555778002250 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 555778002251 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 555778002252 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778002253 homodimer interface [polypeptide binding]; other site 555778002254 catalytic residue [active] 555778002255 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 555778002256 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 555778002257 Walker A motif; other site 555778002258 ATP binding site [chemical binding]; other site 555778002259 Walker B motif; other site 555778002260 arginine finger; other site 555778002261 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 555778002262 hypothetical protein; Validated; Region: PRK00153 555778002263 recombination protein RecR; Reviewed; Region: recR; PRK00076 555778002264 RecR protein; Region: RecR; pfam02132 555778002265 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 555778002266 putative active site [active] 555778002267 putative metal-binding site [ion binding]; other site 555778002268 tetramer interface [polypeptide binding]; other site 555778002269 PilZ domain; Region: PilZ; pfam07238 555778002270 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 555778002271 glycogen synthase; Provisional; Region: glgA; PRK00654 555778002272 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 555778002273 ADP-binding pocket [chemical binding]; other site 555778002274 homodimer interface [polypeptide binding]; other site 555778002275 glycogen branching enzyme; Provisional; Region: PRK05402 555778002276 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 555778002277 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 555778002278 active site 555778002279 catalytic site [active] 555778002280 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 555778002281 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 555778002282 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 555778002283 ligand binding site; other site 555778002284 oligomer interface; other site 555778002285 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 555778002286 dimer interface [polypeptide binding]; other site 555778002287 N-terminal domain interface [polypeptide binding]; other site 555778002288 sulfate 1 binding site; other site 555778002289 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 555778002290 N-terminal catalytic domain of thermoactive amylopullulanases; glycoside hydrolase family 57 (GH57); Region: GH57N_APU; cd10796 555778002291 putative active site [active] 555778002292 catalytic site [active] 555778002293 4-alpha-glucanotransferase; Provisional; Region: PRK14508 555778002294 Predicted membrane protein [Function unknown]; Region: COG3174 555778002295 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 555778002296 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 555778002297 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 555778002298 FtsX-like permease family; Region: FtsX; pfam02687 555778002299 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 555778002300 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 555778002301 Walker A/P-loop; other site 555778002302 ATP binding site [chemical binding]; other site 555778002303 Q-loop/lid; other site 555778002304 ABC transporter signature motif; other site 555778002305 Walker B; other site 555778002306 D-loop; other site 555778002307 H-loop/switch region; other site 555778002308 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 555778002309 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 555778002310 E3 interaction surface; other site 555778002311 lipoyl attachment site [posttranslational modification]; other site 555778002312 HlyD family secretion protein; Region: HlyD_3; pfam13437 555778002313 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 555778002314 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 555778002315 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 555778002316 dimerization interface [polypeptide binding]; other site 555778002317 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 555778002318 ATP binding site [chemical binding]; other site 555778002319 Mg2+ binding site [ion binding]; other site 555778002320 G-X-G motif; other site 555778002321 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 555778002322 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 555778002323 active site 555778002324 phosphorylation site [posttranslational modification] 555778002325 intermolecular recognition site; other site 555778002326 dimerization interface [polypeptide binding]; other site 555778002327 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 555778002328 DNA binding site [nucleotide binding] 555778002329 Outer membrane efflux protein; Region: OEP; pfam02321 555778002330 Nucleopolyhedrovirus P10 protein; Region: NPV_P10; cl17484 555778002331 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 555778002332 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 555778002333 HlyD family secretion protein; Region: HlyD_3; pfam13437 555778002334 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 555778002335 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 555778002336 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 555778002337 NMT1/THI5 like; Region: NMT1; pfam09084 555778002338 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 555778002339 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 555778002340 dimer interface [polypeptide binding]; other site 555778002341 conserved gate region; other site 555778002342 putative PBP binding loops; other site 555778002343 ABC-ATPase subunit interface; other site 555778002344 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 555778002345 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 555778002346 Walker A/P-loop; other site 555778002347 ATP binding site [chemical binding]; other site 555778002348 Q-loop/lid; other site 555778002349 ABC transporter signature motif; other site 555778002350 Walker B; other site 555778002351 D-loop; other site 555778002352 H-loop/switch region; other site 555778002353 Creatinine amidohydrolase; Region: Creatininase; pfam02633 555778002354 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 555778002355 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 555778002356 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 555778002357 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 555778002358 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 555778002359 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 555778002360 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 555778002361 urea carboxylase; Region: urea_carbox; TIGR02712 555778002362 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 555778002363 ATP-grasp domain; Region: ATP-grasp_4; cl17255 555778002364 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 555778002365 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 555778002366 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 555778002367 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 555778002368 carboxyltransferase (CT) interaction site; other site 555778002369 biotinylation site [posttranslational modification]; other site 555778002370 primosome assembly protein PriA; Validated; Region: PRK05580 555778002371 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 555778002372 ATP binding site [chemical binding]; other site 555778002373 putative Mg++ binding site [ion binding]; other site 555778002374 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 555778002375 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 555778002376 Nitrogen regulatory protein P-II; Region: P-II; smart00938 555778002377 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 555778002378 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 555778002379 hydroxyglutarate oxidase; Provisional; Region: PRK11728 555778002380 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 555778002381 HD domain; Region: HD_4; pfam13328 555778002382 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 555778002383 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 555778002384 synthetase active site [active] 555778002385 NTP binding site [chemical binding]; other site 555778002386 metal binding site [ion binding]; metal-binding site 555778002387 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 555778002388 ACT domain; Region: ACT_4; pfam13291 555778002389 DsrE/DsrF-like family; Region: DrsE; cl00672 555778002390 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 555778002391 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 555778002392 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 555778002393 Walker A/P-loop; other site 555778002394 ATP binding site [chemical binding]; other site 555778002395 Q-loop/lid; other site 555778002396 ABC transporter signature motif; other site 555778002397 Walker B; other site 555778002398 D-loop; other site 555778002399 H-loop/switch region; other site 555778002400 TOBE domain; Region: TOBE; cl01440 555778002401 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 555778002402 dimer interface [polypeptide binding]; other site 555778002403 conserved gate region; other site 555778002404 putative PBP binding loops; other site 555778002405 ABC-ATPase subunit interface; other site 555778002406 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 555778002407 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 555778002408 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 555778002409 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 555778002410 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 555778002411 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 555778002412 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 555778002413 DNA photolyase; Region: DNA_photolyase; pfam00875 555778002414 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 555778002415 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 555778002416 HlyD family secretion protein; Region: HlyD_3; pfam13437 555778002417 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 555778002418 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 555778002419 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-C; cd09721 555778002420 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 555778002421 PemK-like protein; Region: PemK; pfam02452 555778002422 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 555778002423 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cd09689 555778002424 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cd09757 555778002425 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 555778002426 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-C; cd09752 555778002427 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 555778002428 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 555778002429 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 555778002430 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 555778002431 non-specific DNA binding site [nucleotide binding]; other site 555778002432 salt bridge; other site 555778002433 sequence-specific DNA binding site [nucleotide binding]; other site 555778002434 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 555778002435 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 555778002436 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 555778002437 DctM-like transporters; Region: DctM; pfam06808 555778002438 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 555778002439 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 555778002440 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 555778002441 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 555778002442 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 555778002443 putative DNA binding site [nucleotide binding]; other site 555778002444 putative Zn2+ binding site [ion binding]; other site 555778002445 AsnC family; Region: AsnC_trans_reg; pfam01037 555778002446 Transcriptional regulators [Transcription]; Region: GntR; COG1802 555778002447 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 555778002448 DNA-binding site [nucleotide binding]; DNA binding site 555778002449 FCD domain; Region: FCD; pfam07729 555778002450 Predicted membrane protein [Function unknown]; Region: COG3748 555778002451 Protein of unknown function (DUF989); Region: DUF989; pfam06181 555778002452 Cytochrome c; Region: Cytochrom_C; pfam00034 555778002453 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 555778002454 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 555778002455 active site 555778002456 catalytic site [active] 555778002457 tetramer interface [polypeptide binding]; other site 555778002458 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 555778002459 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 555778002460 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 555778002461 Walker A/P-loop; other site 555778002462 ATP binding site [chemical binding]; other site 555778002463 Q-loop/lid; other site 555778002464 ABC transporter signature motif; other site 555778002465 Walker B; other site 555778002466 D-loop; other site 555778002467 H-loop/switch region; other site 555778002468 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 555778002469 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 555778002470 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 555778002471 TM-ABC transporter signature motif; other site 555778002472 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 555778002473 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 555778002474 TM-ABC transporter signature motif; other site 555778002475 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 555778002476 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 555778002477 active site 555778002478 putative substrate binding pocket [chemical binding]; other site 555778002479 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 555778002480 nucleoside/Zn binding site; other site 555778002481 dimer interface [polypeptide binding]; other site 555778002482 catalytic motif [active] 555778002483 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 555778002484 active site 555778002485 cytosine deaminase; Validated; Region: PRK07572 555778002486 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 555778002487 active site 555778002488 Protein of unknown function (DUF3225); Region: DUF3225; pfam11533 555778002489 SnoaL-like domain; Region: SnoaL_3; pfam13474 555778002490 amidase; Provisional; Region: PRK09201 555778002491 Amidase; Region: Amidase; pfam01425 555778002492 Isochorismatase family; Region: Isochorismatase; pfam00857 555778002493 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 555778002494 catalytic triad [active] 555778002495 conserved cis-peptide bond; other site 555778002496 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 555778002497 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 555778002498 Walker A/P-loop; other site 555778002499 ATP binding site [chemical binding]; other site 555778002500 Q-loop/lid; other site 555778002501 ABC transporter signature motif; other site 555778002502 Walker B; other site 555778002503 D-loop; other site 555778002504 H-loop/switch region; other site 555778002505 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 555778002506 Isochorismatase family; Region: Isochorismatase; pfam00857 555778002507 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 555778002508 catalytic triad [active] 555778002509 conserved cis-peptide bond; other site 555778002510 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 555778002511 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 555778002512 TM-ABC transporter signature motif; other site 555778002513 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 555778002514 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 555778002515 TM-ABC transporter signature motif; other site 555778002516 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 555778002517 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 555778002518 putative ligand binding site [chemical binding]; other site 555778002519 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 555778002520 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 555778002521 DNA-binding site [nucleotide binding]; DNA binding site 555778002522 FCD domain; Region: FCD; pfam07729 555778002523 oxidase reductase; Provisional; Region: PTZ00273 555778002524 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 555778002525 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 555778002526 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 555778002527 nucleoside/Zn binding site; other site 555778002528 dimer interface [polypeptide binding]; other site 555778002529 catalytic motif [active] 555778002530 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 555778002531 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 555778002532 XdhC Rossmann domain; Region: XdhC_C; pfam13478 555778002533 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 555778002534 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 555778002535 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 555778002536 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 555778002537 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 555778002538 catalytic loop [active] 555778002539 iron binding site [ion binding]; other site 555778002540 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 555778002541 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 555778002542 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 555778002543 active site 555778002544 homotetramer interface [polypeptide binding]; other site 555778002545 indole-3-acetamide amidohydrolase; Region: PLN02722 555778002546 Amidase; Region: Amidase; cl11426 555778002547 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 555778002548 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 555778002549 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 555778002550 catalytic residue [active] 555778002551 allantoate amidohydrolase; Reviewed; Region: PRK09290 555778002552 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 555778002553 active site 555778002554 metal binding site [ion binding]; metal-binding site 555778002555 dimer interface [polypeptide binding]; other site 555778002556 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 555778002557 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 555778002558 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 555778002559 active site 555778002560 purine riboside binding site [chemical binding]; other site 555778002561 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 555778002562 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 555778002563 putative ligand binding site [chemical binding]; other site 555778002564 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 555778002565 glutamine ABC transporter ATP-binding protein; Reviewed; Region: glnQ; PRK09493 555778002566 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 555778002567 Walker A/P-loop; other site 555778002568 ATP binding site [chemical binding]; other site 555778002569 Q-loop/lid; other site 555778002570 ABC transporter signature motif; other site 555778002571 Walker B; other site 555778002572 D-loop; other site 555778002573 H-loop/switch region; other site 555778002574 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 555778002575 Transposase; Region: HTH_Tnp_1; pfam01527 555778002576 HTH-like domain; Region: HTH_21; pfam13276 555778002577 Integrase core domain; Region: rve; pfam00665 555778002578 Integrase core domain; Region: rve_3; cl15866 555778002579 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 555778002580 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 555778002581 FeS/SAM binding site; other site 555778002582 HemN C-terminal domain; Region: HemN_C; pfam06969 555778002583 Predicted membrane protein [Function unknown]; Region: COG2860 555778002584 UPF0126 domain; Region: UPF0126; pfam03458 555778002585 UPF0126 domain; Region: UPF0126; pfam03458 555778002586 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 555778002587 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 555778002588 Walker A/P-loop; other site 555778002589 ATP binding site [chemical binding]; other site 555778002590 Q-loop/lid; other site 555778002591 ABC transporter signature motif; other site 555778002592 Walker B; other site 555778002593 D-loop; other site 555778002594 H-loop/switch region; other site 555778002595 inner membrane transport permease; Provisional; Region: PRK15066 555778002596 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 555778002597 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 555778002598 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 555778002599 Peptidase family U32; Region: Peptidase_U32; pfam01136 555778002600 Collagenase; Region: DUF3656; pfam12392 555778002601 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 555778002602 Domain of unknown function (DUF202); Region: DUF202; pfam02656 555778002603 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 555778002604 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 555778002605 Catalytic site [active] 555778002606 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 555778002607 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 555778002608 active site 555778002609 DNA binding site [nucleotide binding] 555778002610 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 555778002611 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 555778002612 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 555778002613 Na binding site [ion binding]; other site 555778002614 Protein of unknown function, DUF485; Region: DUF485; pfam04341 555778002615 MoxR-like ATPases [General function prediction only]; Region: COG0714 555778002616 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 555778002617 Walker A motif; other site 555778002618 ATP binding site [chemical binding]; other site 555778002619 Walker B motif; other site 555778002620 arginine finger; other site 555778002621 uncharacterized domain; Region: TIGR00702 555778002622 YcaO-like family; Region: YcaO; pfam02624 555778002623 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cl00182 555778002624 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 555778002625 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 555778002626 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 555778002627 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 555778002628 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 555778002629 proline aminopeptidase P II; Provisional; Region: PRK10879 555778002630 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 555778002631 active site 555778002632 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 555778002633 Cell division protein ZapA; Region: ZapA; pfam05164 555778002634 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 555778002635 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 555778002636 folate binding site [chemical binding]; other site 555778002637 NADP+ binding site [chemical binding]; other site 555778002638 Phosphate-starvation-inducible E; Region: PsiE; cl01264 555778002639 thymidylate synthase; Reviewed; Region: thyA; PRK01827 555778002640 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 555778002641 dimerization interface [polypeptide binding]; other site 555778002642 active site 555778002643 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 555778002644 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 1; Region: BMC_like_1_repeat1; cd07051 555778002645 putative hexamer interface [polypeptide binding]; other site 555778002646 putative hexagonal pore; other site 555778002647 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 2; Region: BMC_like_1_repeat2; cd07052 555778002648 putative hexamer interface [polypeptide binding]; other site 555778002649 putative hexagonal pore; other site 555778002650 MoxR-like ATPases [General function prediction only]; Region: COG0714 555778002651 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 555778002652 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 555778002653 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 555778002654 Nitrogen regulatory protein P-II; Region: P-II; smart00938 555778002655 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 555778002656 Formate hydrogenlyase subunit 3/Multisubunit Na+/H+ antiporter, MnhD subunit [Energy production and conversion / Inorganic ion transport and metabolism]; Region: HyfB; COG0651 555778002657 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 555778002658 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 555778002659 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 555778002660 metal ion-dependent adhesion site (MIDAS); other site 555778002661 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 555778002662 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 555778002663 P-loop; other site 555778002664 Magnesium ion binding site [ion binding]; other site 555778002665 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cl00942 555778002666 aromatic arch; other site 555778002667 DCoH dimer interaction site [polypeptide binding]; other site 555778002668 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 555778002669 DCoH tetramer interaction site [polypeptide binding]; other site 555778002670 substrate binding site [chemical binding]; other site 555778002671 Carboxysome Shell 1 (CsoS1); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CsoS1; cd07058 555778002672 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 555778002673 Hexamer interface [polypeptide binding]; other site 555778002674 Hexagonal pore residue; other site 555778002675 Hexagonal pore; other site 555778002676 Carboxysome Shell 1 (CsoS1); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CsoS1; cd07058 555778002677 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 555778002678 Hexamer interface [polypeptide binding]; other site 555778002679 Hexagonal pore residue; other site 555778002680 Hexagonal pore; other site 555778002681 Carboxysome Shell 1 (CsoS1); Bacterial Micro-Compartment (BCM) domain; Region: BMC_CsoS1; cd07058 555778002682 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 555778002683 Hexamer interface [polypeptide binding]; other site 555778002684 Hexagonal pore residue; other site 555778002685 Hexagonal pore; other site 555778002686 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 555778002687 Hexamer/Pentamer interface [polypeptide binding]; other site 555778002688 central pore; other site 555778002689 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 555778002690 Hexamer/Pentamer interface [polypeptide binding]; other site 555778002691 central pore; other site 555778002692 carboxysome shell carbonic anhydrase; Region: shell_carb_anhy; TIGR02701 555778002693 Carboxysome shell peptide mid-region; Region: CsoS2_M; pfam12288 555778002694 Ribulose bisphosphate carboxylase/oxygenase (Rubisco), small subunit. Rubisco is a bifunctional enzyme catalyzes the initial steps of two opposing metabolic pathways: photosynthetic carbon fixation and the competing process of photorespiration. Rubisco...; Region: RuBisCO_small; cd03527 555778002695 multimerization interface [polypeptide binding]; other site 555778002696 ribulose bisophosphate carboxylase; Reviewed; Region: rbcL; PRK04208 555778002697 Ribulose bisphosphate carboxylase large chain, Form I; Region: RuBisCO_large_I; cd08212 555778002698 homodimer interface [polypeptide binding]; other site 555778002699 active site 555778002700 heterodimer interface [polypeptide binding]; other site 555778002701 catalytic residue [active] 555778002702 metal binding site [ion binding]; metal-binding site 555778002703 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 555778002704 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 555778002705 metal-binding site [ion binding] 555778002706 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 555778002707 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 555778002708 metal-binding site [ion binding] 555778002709 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 555778002710 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 555778002711 motif II; other site 555778002712 Domain of unknown function DUF302; Region: DUF302; pfam03625 555778002713 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 555778002714 metal-binding site [ion binding] 555778002715 NnrS protein; Region: NnrS; pfam05940 555778002716 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 555778002717 Transcriptional regulator; Region: Rrf2; cl17282 555778002718 Rrf2 family protein; Region: rrf2_super; TIGR00738 555778002719 VirC1 protein; Region: VirC1; cl17401 555778002720 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 555778002721 AAA domain; Region: AAA_21; pfam13304 555778002722 Walker A/P-loop; other site 555778002723 ATP binding site [chemical binding]; other site 555778002724 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 555778002725 Helix-turn-helix domain; Region: HTH_38; pfam13936 555778002726 Integrase core domain; Region: rve; pfam00665 555778002727 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 555778002728 RHS Repeat; Region: RHS_repeat; pfam05593 555778002729 RHS Repeat; Region: RHS_repeat; pfam05593 555778002730 RHS Repeat; Region: RHS_repeat; pfam05593 555778002731 RHS Repeat; Region: RHS_repeat; pfam05593 555778002732 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 555778002733 RHS Repeat; Region: RHS_repeat; pfam05593 555778002734 RHS Repeat; Region: RHS_repeat; pfam05593 555778002735 RHS protein; Region: RHS; pfam03527 555778002736 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 555778002737 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 555778002738 AAA domain; Region: AAA_30; pfam13604 555778002739 Family description; Region: UvrD_C_2; pfam13538 555778002740 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 555778002741 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; cl17836 555778002742 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 555778002743 motif II; other site 555778002744 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 555778002745 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 555778002746 active site 555778002747 metal binding site [ion binding]; metal-binding site 555778002748 "elongating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP)...; Region: elong_cond_enzymes; cd00828 555778002749 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 555778002750 active site 555778002751 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 555778002752 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 555778002753 FcoT-like thioesterase domain; Region: FcoT; pfam10862 555778002754 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 555778002755 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 555778002756 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 555778002757 active site 555778002758 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 555778002759 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 555778002760 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 555778002761 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 555778002762 Enoylreductase; Region: PKS_ER; smart00829 555778002763 NAD(P) binding site [chemical binding]; other site 555778002764 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 555778002765 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 555778002766 putative NADP binding site [chemical binding]; other site 555778002767 active site 555778002768 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 555778002769 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 555778002770 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 555778002771 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 555778002772 acyl-activating enzyme (AAE) consensus motif; other site 555778002773 acyl-activating enzyme (AAE) consensus motif; other site 555778002774 putative AMP binding site [chemical binding]; other site 555778002775 putative active site [active] 555778002776 putative CoA binding site [chemical binding]; other site 555778002777 Cupin-like domain; Region: Cupin_8; pfam13621 555778002778 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 555778002779 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 555778002780 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 555778002781 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 555778002782 Autoinducer binding domain; Region: Autoind_bind; pfam03472 555778002783 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 555778002784 DNA binding residues [nucleotide binding] 555778002785 dimerization interface [polypeptide binding]; other site 555778002786 Autoinducer synthetase; Region: Autoind_synth; cl17404 555778002787 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 555778002788 active site 555778002789 DNA binding site [nucleotide binding] 555778002790 Int/Topo IB signature motif; other site 555778002791 enolase; Provisional; Region: eno; PRK00077 555778002792 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 555778002793 dimer interface [polypeptide binding]; other site 555778002794 metal binding site [ion binding]; metal-binding site 555778002795 substrate binding pocket [chemical binding]; other site 555778002796 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 555778002797 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 555778002798 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 555778002799 Soluble P-type ATPase [General function prediction only]; Region: COG4087 555778002800 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 555778002801 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 555778002802 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 555778002803 non-specific DNA binding site [nucleotide binding]; other site 555778002804 salt bridge; other site 555778002805 sequence-specific DNA binding site [nucleotide binding]; other site 555778002806 Protein of unknown function DUF45; Region: DUF45; pfam01863 555778002807 multifunctional aminopeptidase A; Provisional; Region: PRK00913 555778002808 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 555778002809 interface (dimer of trimers) [polypeptide binding]; other site 555778002810 Substrate-binding/catalytic site; other site 555778002811 Zn-binding sites [ion binding]; other site 555778002812 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 555778002813 NlpC/P60 family; Region: NLPC_P60; pfam00877 555778002814 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 555778002815 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 555778002816 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 555778002817 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 555778002818 S-adenosylmethionine binding site [chemical binding]; other site 555778002819 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 555778002820 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 555778002821 Walker A/P-loop; other site 555778002822 ATP binding site [chemical binding]; other site 555778002823 Q-loop/lid; other site 555778002824 ABC transporter signature motif; other site 555778002825 Walker B; other site 555778002826 D-loop; other site 555778002827 H-loop/switch region; other site 555778002828 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 555778002829 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 555778002830 Walker A/P-loop; other site 555778002831 ATP binding site [chemical binding]; other site 555778002832 Q-loop/lid; other site 555778002833 ABC transporter signature motif; other site 555778002834 Walker B; other site 555778002835 D-loop; other site 555778002836 H-loop/switch region; other site 555778002837 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 555778002838 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 555778002839 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 555778002840 dimer interface [polypeptide binding]; other site 555778002841 active site 555778002842 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 555778002843 active site 1 [active] 555778002844 dimer interface [polypeptide binding]; other site 555778002845 active site 2 [active] 555778002846 Protein of unknown function (DUF423); Region: DUF423; pfam04241 555778002847 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 555778002848 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 555778002849 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 555778002850 metal binding site 2 [ion binding]; metal-binding site 555778002851 putative DNA binding helix; other site 555778002852 metal binding site 1 [ion binding]; metal-binding site 555778002853 dimer interface [polypeptide binding]; other site 555778002854 structural Zn2+ binding site [ion binding]; other site 555778002855 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 555778002856 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 555778002857 trimer interface [polypeptide binding]; other site 555778002858 active site 555778002859 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 555778002860 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 555778002861 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 555778002862 putative active site [active] 555778002863 Ap4A binding site [chemical binding]; other site 555778002864 nudix motif; other site 555778002865 putative metal binding site [ion binding]; other site 555778002866 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 555778002867 GAF domain; Region: GAF; pfam01590 555778002868 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 555778002869 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 555778002870 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 555778002871 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 555778002872 Glycoprotease family; Region: Peptidase_M22; pfam00814 555778002873 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 555778002874 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 555778002875 active site 555778002876 dimer interface [polypeptide binding]; other site 555778002877 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 555778002878 dimer interface [polypeptide binding]; other site 555778002879 active site 555778002880 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 555778002881 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 555778002882 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 555778002883 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 555778002884 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 555778002885 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 555778002886 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 555778002887 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 555778002888 glycerol kinase; Provisional; Region: glpK; PRK00047 555778002889 Cellulomonas sp. glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_CsGK_like; cd07789 555778002890 N- and C-terminal domain interface [polypeptide binding]; other site 555778002891 active site 555778002892 MgATP binding site [chemical binding]; other site 555778002893 catalytic site [active] 555778002894 metal binding site [ion binding]; metal-binding site 555778002895 putative homotetramer interface [polypeptide binding]; other site 555778002896 glycerol binding site [chemical binding]; other site 555778002897 homodimer interface [polypeptide binding]; other site 555778002898 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 555778002899 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 555778002900 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 555778002901 Walker A/P-loop; other site 555778002902 ATP binding site [chemical binding]; other site 555778002903 Q-loop/lid; other site 555778002904 ABC transporter signature motif; other site 555778002905 Walker B; other site 555778002906 D-loop; other site 555778002907 H-loop/switch region; other site 555778002908 Biofilm formation and stress response factor; Region: BsmA; pfam10014 555778002909 replicative DNA helicase; Region: DnaB; TIGR00665 555778002910 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 555778002911 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 555778002912 Walker A motif; other site 555778002913 ATP binding site [chemical binding]; other site 555778002914 Walker B motif; other site 555778002915 DNA binding loops [nucleotide binding] 555778002916 alanine racemase; Reviewed; Region: alr; PRK00053 555778002917 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 555778002918 active site 555778002919 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 555778002920 substrate binding site [chemical binding]; other site 555778002921 catalytic residues [active] 555778002922 dimer interface [polypeptide binding]; other site 555778002923 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 555778002924 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 555778002925 catalytic triad [active] 555778002926 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 555778002927 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 555778002928 dimer interface [polypeptide binding]; other site 555778002929 putative radical transfer pathway; other site 555778002930 diiron center [ion binding]; other site 555778002931 tyrosyl radical; other site 555778002932 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 555778002933 ATP cone domain; Region: ATP-cone; pfam03477 555778002934 ATP cone domain; Region: ATP-cone; pfam03477 555778002935 Class I ribonucleotide reductase; Region: RNR_I; cd01679 555778002936 active site 555778002937 dimer interface [polypeptide binding]; other site 555778002938 catalytic residues [active] 555778002939 effector binding site; other site 555778002940 R2 peptide binding site; other site 555778002941 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 555778002942 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 555778002943 putative NAD(P) binding site [chemical binding]; other site 555778002944 active site 555778002945 putative substrate binding site [chemical binding]; other site 555778002946 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 555778002947 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 555778002948 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 555778002949 ABC-ATPase subunit interface; other site 555778002950 dimer interface [polypeptide binding]; other site 555778002951 putative PBP binding regions; other site 555778002952 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 555778002953 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 555778002954 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 555778002955 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 555778002956 putative metal binding residues [ion binding]; other site 555778002957 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 555778002958 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 555778002959 UbiA prenyltransferase family; Region: UbiA; pfam01040 555778002960 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 555778002961 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 555778002962 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 555778002963 HlyD family secretion protein; Region: HlyD_3; pfam13437 555778002964 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 555778002965 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 555778002966 dimer interface [polypeptide binding]; other site 555778002967 FMN binding site [chemical binding]; other site 555778002968 Pirin-related protein [General function prediction only]; Region: COG1741 555778002969 Pirin; Region: Pirin; pfam02678 555778002970 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 555778002971 Uncharacterized conserved protein [Function unknown]; Region: COG2353 555778002972 Transcriptional regulator [Transcription]; Region: LysR; COG0583 555778002973 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 555778002974 LysR substrate binding domain; Region: LysR_substrate; pfam03466 555778002975 dimerization interface [polypeptide binding]; other site 555778002976 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 555778002977 active site residue [active] 555778002978 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 555778002979 epoxyqueuosine reductase; Region: TIGR00276 555778002980 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 555778002981 adenylosuccinate lyase; Provisional; Region: PRK09285 555778002982 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 555778002983 tetramer interface [polypeptide binding]; other site 555778002984 active site 555778002985 Putative exonuclease, RdgC; Region: RdgC; cl01122 555778002986 aminopeptidase N; Provisional; Region: pepN; PRK14015 555778002987 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 555778002988 active site 555778002989 Zn binding site [ion binding]; other site 555778002990 flagellar motor protein MotA; Validated; Region: PRK09110 555778002991 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 555778002992 flagellar motor protein MotB; Validated; Region: motB; PRK09041 555778002993 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 555778002994 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 555778002995 ligand binding site [chemical binding]; other site 555778002996 CobD/Cbib protein; Region: CobD_Cbib; cl00561 555778002997 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 555778002998 S-adenosylmethionine binding site [chemical binding]; other site 555778002999 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 555778003000 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 555778003001 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 555778003002 Walker A motif; other site 555778003003 ATP binding site [chemical binding]; other site 555778003004 Walker B motif; other site 555778003005 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 555778003006 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 555778003007 catalytic residues [active] 555778003008 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 555778003009 Ligand binding site; other site 555778003010 Putative Catalytic site; other site 555778003011 DXD motif; other site 555778003012 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 555778003013 active site 555778003014 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 555778003015 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 555778003016 tRNA; other site 555778003017 putative tRNA binding site [nucleotide binding]; other site 555778003018 putative NADP binding site [chemical binding]; other site 555778003019 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 555778003020 peptide chain release factor 1; Validated; Region: prfA; PRK00591 555778003021 This domain is found in peptide chain release factors; Region: PCRF; smart00937 555778003022 RF-1 domain; Region: RF-1; pfam00472 555778003023 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 555778003024 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 555778003025 S-adenosylmethionine binding site [chemical binding]; other site 555778003026 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 555778003027 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 555778003028 ATP binding site [chemical binding]; other site 555778003029 substrate interface [chemical binding]; other site 555778003030 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 555778003031 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 555778003032 quinone interaction residues [chemical binding]; other site 555778003033 active site 555778003034 catalytic residues [active] 555778003035 FMN binding site [chemical binding]; other site 555778003036 substrate binding site [chemical binding]; other site 555778003037 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 555778003038 heat shock protein HtpX; Provisional; Region: PRK05457 555778003039 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 555778003040 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 555778003041 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 555778003042 active site 555778003043 HIGH motif; other site 555778003044 KMSKS motif; other site 555778003045 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 555778003046 tRNA binding surface [nucleotide binding]; other site 555778003047 anticodon binding site; other site 555778003048 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 555778003049 putative tRNA-binding site [nucleotide binding]; other site 555778003050 dimer interface [polypeptide binding]; other site 555778003051 ADP-heptose:LPS heptosyl transferase I; Provisional; Region: PRK10964; cl15782 555778003052 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 555778003053 FAD binding domain; Region: FAD_binding_4; pfam01565 555778003054 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 555778003055 peroxiredoxin; Provisional; Region: PRK13189 555778003056 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 555778003057 dimer interface [polypeptide binding]; other site 555778003058 decamer (pentamer of dimers) interface [polypeptide binding]; other site 555778003059 catalytic triad [active] 555778003060 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 555778003061 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 555778003062 metal ion-dependent adhesion site (MIDAS); other site 555778003063 TIGR03503 family protein; Region: TIGR03503 555778003064 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 555778003065 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 555778003066 Walker A/P-loop; other site 555778003067 ATP binding site [chemical binding]; other site 555778003068 Q-loop/lid; other site 555778003069 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 555778003070 ABC transporter; Region: ABC_tran_2; pfam12848 555778003071 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 555778003072 HDOD domain; Region: HDOD; pfam08668 555778003073 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 555778003074 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 555778003075 dimer interface [polypeptide binding]; other site 555778003076 ADP-ribose binding site [chemical binding]; other site 555778003077 active site 555778003078 nudix motif; other site 555778003079 metal binding site [ion binding]; metal-binding site 555778003080 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 555778003081 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 555778003082 substrate binding site [chemical binding]; other site 555778003083 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 555778003084 substrate binding site [chemical binding]; other site 555778003085 ligand binding site [chemical binding]; other site 555778003086 hypothetical protein; Provisional; Region: PRK12378 555778003087 hypothetical protein; Provisional; Region: PRK05170 555778003088 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 555778003089 active site 555778003090 HIGH motif; other site 555778003091 nucleotide binding site [chemical binding]; other site 555778003092 KMSKS motif; other site 555778003093 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 555778003094 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 555778003095 N-acetyl-D-glucosamine binding site [chemical binding]; other site 555778003096 catalytic residue [active] 555778003097 exonuclease I; Provisional; Region: sbcB; PRK11779 555778003098 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 555778003099 active site 555778003100 catalytic site [active] 555778003101 substrate binding site [chemical binding]; other site 555778003102 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 555778003103 FOG: CBS domain [General function prediction only]; Region: COG0517 555778003104 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 555778003105 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 555778003106 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 555778003107 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 555778003108 minor groove reading motif; other site 555778003109 helix-hairpin-helix signature motif; other site 555778003110 substrate binding pocket [chemical binding]; other site 555778003111 active site 555778003112 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 555778003113 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 555778003114 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 555778003115 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 555778003116 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778003117 homodimer interface [polypeptide binding]; other site 555778003118 catalytic residue [active] 555778003119 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 555778003120 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 555778003121 Methyltransferase domain; Region: Methyltransf_31; pfam13847 555778003122 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 555778003123 S-adenosylmethionine binding site [chemical binding]; other site 555778003124 Protein of unknown function, DUF481; Region: DUF481; pfam04338 555778003125 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 555778003126 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 555778003127 putative acyl-acceptor binding pocket; other site 555778003128 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 555778003129 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 555778003130 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 555778003131 putative active site [active] 555778003132 putative metal binding site [ion binding]; other site 555778003133 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 555778003134 active site 555778003135 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 555778003136 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 555778003137 active site 555778003138 HIGH motif; other site 555778003139 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 555778003140 KMSKS motif; other site 555778003141 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 555778003142 tRNA binding surface [nucleotide binding]; other site 555778003143 anticodon binding site; other site 555778003144 Predicted phosphohydrolase (DHH superfamily) [General function prediction only]; Region: COG2404 555778003145 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 555778003146 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 555778003147 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 555778003148 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 555778003149 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 555778003150 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 555778003151 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 555778003152 catalytic residue [active] 555778003153 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 555778003154 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 555778003155 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 555778003156 NAD binding site [chemical binding]; other site 555778003157 homodimer interface [polypeptide binding]; other site 555778003158 active site 555778003159 substrate binding site [chemical binding]; other site 555778003160 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 555778003161 dimerization interface [polypeptide binding]; other site 555778003162 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778003163 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778003164 metal binding site [ion binding]; metal-binding site 555778003165 active site 555778003166 I-site; other site 555778003167 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 555778003168 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 555778003169 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 555778003170 putative dimerization interface [polypeptide binding]; other site 555778003171 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 555778003172 metal ion-dependent adhesion site (MIDAS); other site 555778003173 MoxR-like ATPases [General function prediction only]; Region: COG0714 555778003174 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 555778003175 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 555778003176 ribulose bisphosphate carboxylase; Provisional; Region: PRK13475 555778003177 Ribulose bisphosphate carboxylase large chain, Form II; Region: RuBisCO_large_II; cd08211 555778003178 dimer interface [polypeptide binding]; other site 555778003179 active site 555778003180 catalytic residue [active] 555778003181 metal binding site [ion binding]; metal-binding site 555778003182 Transcriptional regulator [Transcription]; Region: LysR; COG0583 555778003183 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 555778003184 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 555778003185 putative dimerization interface [polypeptide binding]; other site 555778003186 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 555778003187 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 555778003188 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 555778003189 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 555778003190 Walker A/P-loop; other site 555778003191 ATP binding site [chemical binding]; other site 555778003192 Q-loop/lid; other site 555778003193 ABC transporter signature motif; other site 555778003194 Walker B; other site 555778003195 D-loop; other site 555778003196 H-loop/switch region; other site 555778003197 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 555778003198 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 555778003199 Walker A/P-loop; other site 555778003200 ATP binding site [chemical binding]; other site 555778003201 Q-loop/lid; other site 555778003202 ABC transporter signature motif; other site 555778003203 Walker B; other site 555778003204 D-loop; other site 555778003205 H-loop/switch region; other site 555778003206 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 555778003207 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 555778003208 TM-ABC transporter signature motif; other site 555778003209 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 555778003210 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 555778003211 TM-ABC transporter signature motif; other site 555778003212 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 555778003213 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 555778003214 putative ligand binding site [chemical binding]; other site 555778003215 Transcriptional regulators [Transcription]; Region: GntR; COG1802 555778003216 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 555778003217 DNA-binding site [nucleotide binding]; DNA binding site 555778003218 FCD domain; Region: FCD; pfam07729 555778003219 urea carboxylase; Region: urea_carbox; TIGR02712 555778003220 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 555778003221 ATP-grasp domain; Region: ATP-grasp_4; cl17255 555778003222 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 555778003223 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 555778003224 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 555778003225 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 555778003226 carboxyltransferase (CT) interaction site; other site 555778003227 biotinylation site [posttranslational modification]; other site 555778003228 allophanate hydrolase; Provisional; Region: PRK08186 555778003229 Amidase; Region: Amidase; cl11426 555778003230 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 555778003231 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 555778003232 dimer interface [polypeptide binding]; other site 555778003233 putative functional site; other site 555778003234 putative MPT binding site; other site 555778003235 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 555778003236 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 555778003237 GTP binding site; other site 555778003238 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 555778003239 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 555778003240 active site 555778003241 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 555778003242 siroheme synthase; Provisional; Region: cysG; PRK10637 555778003243 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 555778003244 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 555778003245 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 555778003246 active site 555778003247 SAM binding site [chemical binding]; other site 555778003248 homodimer interface [polypeptide binding]; other site 555778003249 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 555778003250 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 555778003251 [4Fe-4S] binding site [ion binding]; other site 555778003252 molybdopterin cofactor binding site; other site 555778003253 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 555778003254 molybdopterin cofactor binding site; other site 555778003255 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 555778003256 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 555778003257 [2Fe-2S] cluster binding site [ion binding]; other site 555778003258 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 555778003259 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 555778003260 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 555778003261 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 555778003262 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 555778003263 NMT1-like family; Region: NMT1_2; pfam13379 555778003264 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 555778003265 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 555778003266 dimer interface [polypeptide binding]; other site 555778003267 conserved gate region; other site 555778003268 putative PBP binding loops; other site 555778003269 ABC-ATPase subunit interface; other site 555778003270 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 555778003271 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 555778003272 Walker A/P-loop; other site 555778003273 ATP binding site [chemical binding]; other site 555778003274 Q-loop/lid; other site 555778003275 ABC transporter signature motif; other site 555778003276 Walker B; other site 555778003277 D-loop; other site 555778003278 H-loop/switch region; other site 555778003279 Nitrate and nitrite sensing; Region: NIT; pfam08376 555778003280 ANTAR domain; Region: ANTAR; pfam03861 555778003281 cbb3-type cytochrome c oxidase subunit I; Provisional; Region: PRK14488 555778003282 Low-spin heme binding site [chemical binding]; other site 555778003283 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 555778003284 D-pathway; other site 555778003285 Putative water exit pathway; other site 555778003286 Binuclear center (active site) [active] 555778003287 K-pathway; other site 555778003288 Putative proton exit pathway; other site 555778003289 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 555778003290 Part of AAA domain; Region: AAA_19; pfam13245 555778003291 Family description; Region: UvrD_C_2; pfam13538 555778003292 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 555778003293 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 555778003294 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 555778003295 FeoA domain; Region: FeoA; pfam04023 555778003296 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 555778003297 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 555778003298 trimer interface [polypeptide binding]; other site 555778003299 putative metal binding site [ion binding]; other site 555778003300 Cytochrome C' Region: Cytochrom_C_2; pfam01322 555778003301 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 555778003302 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 555778003303 HAMP domain; Region: HAMP; pfam00672 555778003304 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 555778003305 dimer interface [polypeptide binding]; other site 555778003306 putative CheW interface [polypeptide binding]; other site 555778003307 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 555778003308 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 555778003309 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 555778003310 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 555778003311 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 555778003312 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 555778003313 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 555778003314 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 555778003315 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 555778003316 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 555778003317 poly(A) polymerase; Region: pcnB; TIGR01942 555778003318 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 555778003319 active site 555778003320 NTP binding site [chemical binding]; other site 555778003321 metal binding triad [ion binding]; metal-binding site 555778003322 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 555778003323 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 555778003324 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 555778003325 catalytic center binding site [active] 555778003326 ATP binding site [chemical binding]; other site 555778003327 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 555778003328 oligomerization interface [polypeptide binding]; other site 555778003329 active site 555778003330 metal binding site [ion binding]; metal-binding site 555778003331 Pantoate-beta-alanine ligase; Region: PanC; cd00560 555778003332 active site 555778003333 ATP-binding site [chemical binding]; other site 555778003334 pantoate-binding site; other site 555778003335 HXXH motif; other site 555778003336 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 555778003337 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 555778003338 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 555778003339 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 555778003340 Ligand Binding Site [chemical binding]; other site 555778003341 TilS substrate binding domain; Region: TilS; pfam09179 555778003342 TilS substrate C-terminal domain; Region: TilS_C; smart00977 555778003343 Uncharacterized conserved protein [Function unknown]; Region: COG0327 555778003344 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 555778003345 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 555778003346 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 555778003347 [2Fe-2S] cluster binding site [ion binding]; other site 555778003348 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 555778003349 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 555778003350 Qi binding site; other site 555778003351 intrachain domain interface; other site 555778003352 interchain domain interface [polypeptide binding]; other site 555778003353 heme bH binding site [chemical binding]; other site 555778003354 heme bL binding site [chemical binding]; other site 555778003355 Qo binding site; other site 555778003356 interchain domain interface [polypeptide binding]; other site 555778003357 intrachain domain interface; other site 555778003358 Qi binding site; other site 555778003359 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 555778003360 Qo binding site; other site 555778003361 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 555778003362 PAS domain; Region: PAS_9; pfam13426 555778003363 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 555778003364 PAS fold; Region: PAS_3; pfam08447 555778003365 putative active site [active] 555778003366 heme pocket [chemical binding]; other site 555778003367 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778003368 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778003369 metal binding site [ion binding]; metal-binding site 555778003370 active site 555778003371 I-site; other site 555778003372 Domain of unknown function (DUF336); Region: DUF336; pfam03928 555778003373 PilZ domain; Region: PilZ; cl01260 555778003374 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 555778003375 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 555778003376 DsrE/DsrF-like family; Region: DrsE; pfam02635 555778003377 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 555778003378 active site 555778003379 substrate binding pocket [chemical binding]; other site 555778003380 dimer interface [polypeptide binding]; other site 555778003381 tRNA pseudouridine synthase D; Reviewed; Region: truD; PRK00984 555778003382 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 555778003383 Permutation of conserved domain; other site 555778003384 active site 555778003385 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 555778003386 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 555778003387 putative GSH binding site [chemical binding]; other site 555778003388 catalytic residues [active] 555778003389 Response regulator receiver domain; Region: Response_reg; pfam00072 555778003390 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 555778003391 active site 555778003392 phosphorylation site [posttranslational modification] 555778003393 intermolecular recognition site; other site 555778003394 dimerization interface [polypeptide binding]; other site 555778003395 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778003396 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778003397 metal binding site [ion binding]; metal-binding site 555778003398 active site 555778003399 I-site; other site 555778003400 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 555778003401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 555778003402 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 555778003403 amidophosphoribosyltransferase; Provisional; Region: PRK09246 555778003404 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 555778003405 active site 555778003406 tetramer interface [polypeptide binding]; other site 555778003407 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 555778003408 active site 555778003409 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 555778003410 Colicin V production protein; Region: Colicin_V; cl00567 555778003411 Sporulation related domain; Region: SPOR; pfam05036 555778003412 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 555778003413 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 555778003414 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 555778003415 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 555778003416 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 555778003417 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 555778003418 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 555778003419 substrate binding site [chemical binding]; other site 555778003420 active site 555778003421 catalytic residues [active] 555778003422 heterodimer interface [polypeptide binding]; other site 555778003423 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 555778003424 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 555778003425 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778003426 catalytic residue [active] 555778003427 phosphoribosylanthranilate isomerase; Region: PLN02363 555778003428 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 555778003429 active site 555778003430 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 555778003431 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 555778003432 dimerization interface 3.5A [polypeptide binding]; other site 555778003433 active site 555778003434 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 555778003435 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 555778003436 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 555778003437 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 555778003438 HlyD family secretion protein; Region: HlyD_3; pfam13437 555778003439 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 555778003440 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 555778003441 binding surface 555778003442 TPR motif; other site 555778003443 Tetratricopeptide repeat; Region: TPR_12; pfam13424 555778003444 TPR repeat; Region: TPR_11; pfam13414 555778003445 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 555778003446 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 555778003447 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 555778003448 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 555778003449 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 555778003450 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 555778003451 active site 555778003452 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 555778003453 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 555778003454 5S rRNA interface [nucleotide binding]; other site 555778003455 CTC domain interface [polypeptide binding]; other site 555778003456 L16 interface [polypeptide binding]; other site 555778003457 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 555778003458 putative active site [active] 555778003459 catalytic residue [active] 555778003460 GTP-binding protein YchF; Reviewed; Region: PRK09601 555778003461 YchF GTPase; Region: YchF; cd01900 555778003462 G1 box; other site 555778003463 GTP/Mg2+ binding site [chemical binding]; other site 555778003464 Switch I region; other site 555778003465 G2 box; other site 555778003466 Switch II region; other site 555778003467 G3 box; other site 555778003468 G4 box; other site 555778003469 G5 box; other site 555778003470 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 555778003471 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 555778003472 dimer interface [polypeptide binding]; other site 555778003473 active site 555778003474 aspartate-rich active site metal binding site; other site 555778003475 allosteric magnesium binding site [ion binding]; other site 555778003476 Schiff base residues; other site 555778003477 hypothetical protein; Provisional; Region: PRK05415 555778003478 Domain of unknown function (DUF697); Region: DUF697; pfam05128 555778003479 YcjX-like family, DUF463; Region: DUF463; cl01193 555778003480 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 555778003481 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 555778003482 Cation efflux family; Region: Cation_efflux; cl00316 555778003483 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 555778003484 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 555778003485 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 555778003486 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 555778003487 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 555778003488 putative active site [active] 555778003489 catalytic triad [active] 555778003490 putative dimer interface [polypeptide binding]; other site 555778003491 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 555778003492 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 555778003493 Transporter associated domain; Region: CorC_HlyC; smart01091 555778003494 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 555778003495 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 555778003496 PhoH-like protein; Region: PhoH; pfam02562 555778003497 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 555778003498 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 555778003499 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 555778003500 FeS/SAM binding site; other site 555778003501 TRAM domain; Region: TRAM; pfam01938 555778003502 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 555778003503 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 555778003504 FMN binding site [chemical binding]; other site 555778003505 active site 555778003506 catalytic residues [active] 555778003507 substrate binding site [chemical binding]; other site 555778003508 ABC1 family; Region: ABC1; cl17513 555778003509 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 555778003510 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 555778003511 SCP-2 sterol transfer family; Region: SCP2; pfam02036 555778003512 CHAD domain; Region: CHAD; pfam05235 555778003513 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 555778003514 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 555778003515 N-terminal plug; other site 555778003516 ligand-binding site [chemical binding]; other site 555778003517 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 555778003518 Transcriptional regulator; Region: Rrf2; pfam02082 555778003519 putative ABC transporter; Region: ycf24; CHL00085 555778003520 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 555778003521 FeS assembly ATPase SufC; Region: sufC; TIGR01978 555778003522 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 555778003523 Walker A/P-loop; other site 555778003524 ATP binding site [chemical binding]; other site 555778003525 Q-loop/lid; other site 555778003526 ABC transporter signature motif; other site 555778003527 Walker B; other site 555778003528 D-loop; other site 555778003529 H-loop/switch region; other site 555778003530 FeS assembly protein SufD; Region: sufD; TIGR01981 555778003531 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 555778003532 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 555778003533 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 555778003534 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 555778003535 catalytic residue [active] 555778003536 Domain of unknown function DUF59; Region: DUF59; cl00941 555778003537 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 555778003538 [2Fe-2S] cluster binding site [ion binding]; other site 555778003539 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 555778003540 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 555778003541 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 555778003542 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 555778003543 Moco binding site; other site 555778003544 metal coordination site [ion binding]; other site 555778003545 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 555778003546 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 555778003547 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 555778003548 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 555778003549 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 555778003550 multiple promoter invertase; Provisional; Region: mpi; PRK13413 555778003551 catalytic residues [active] 555778003552 catalytic nucleophile [active] 555778003553 Presynaptic Site I dimer interface [polypeptide binding]; other site 555778003554 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 555778003555 Synaptic Flat tetramer interface [polypeptide binding]; other site 555778003556 Synaptic Site I dimer interface [polypeptide binding]; other site 555778003557 DNA binding site [nucleotide binding] 555778003558 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 555778003559 DNA-binding interface [nucleotide binding]; DNA binding site 555778003560 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 555778003561 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 555778003562 putative mercury resistance protein; Provisional; Region: PRK13747 555778003563 putative mercuric reductase; Provisional; Region: PRK13748 555778003564 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 555778003565 metal-binding site [ion binding] 555778003566 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 555778003567 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 555778003568 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 555778003569 putative mercury transport protein MerC; Provisional; Region: PRK13755 555778003570 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 555778003571 metal-binding site [ion binding] 555778003572 putative mercuric transport protein; Provisional; Region: PRK13751 555778003573 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 555778003574 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 555778003575 DNA binding residues [nucleotide binding] 555778003576 dimer interface [polypeptide binding]; other site 555778003577 mercury binding site [ion binding]; other site 555778003578 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 555778003579 DNA binding residues [nucleotide binding] 555778003580 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 555778003581 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 555778003582 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 555778003583 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 555778003584 active site 555778003585 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 555778003586 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 555778003587 dimerization interface [polypeptide binding]; other site 555778003588 DPS ferroxidase diiron center [ion binding]; other site 555778003589 ion pore; other site 555778003590 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 555778003591 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 555778003592 active site 555778003593 HIGH motif; other site 555778003594 nucleotide binding site [chemical binding]; other site 555778003595 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 555778003596 active site 555778003597 KMSKS motif; other site 555778003598 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 555778003599 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 555778003600 Sulphur oxygenase reductase; Region: SOR; pfam07682 555778003601 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 555778003602 RNA/DNA hybrid binding site [nucleotide binding]; other site 555778003603 active site 555778003604 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 555778003605 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 555778003606 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 555778003607 metal binding site [ion binding]; metal-binding site 555778003608 putative dimer interface [polypeptide binding]; other site 555778003609 transposase/IS protein; Provisional; Region: PRK09183 555778003610 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 555778003611 Walker A motif; other site 555778003612 ATP binding site [chemical binding]; other site 555778003613 Walker B motif; other site 555778003614 arginine finger; other site 555778003615 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 555778003616 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 555778003617 Integrase core domain; Region: rve; pfam00665 555778003618 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 555778003619 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 555778003620 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 555778003621 CAP-like domain; other site 555778003622 active site 555778003623 primary dimer interface [polypeptide binding]; other site 555778003624 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 555778003625 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 555778003626 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 555778003627 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 555778003628 putative protease; Provisional; Region: PRK15452 555778003629 Peptidase family U32; Region: Peptidase_U32; pfam01136 555778003630 Sensors of blue-light using FAD; Region: BLUF; smart01034 555778003631 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 555778003632 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 555778003633 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 555778003634 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 555778003635 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 555778003636 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 555778003637 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 555778003638 Protein of unknown function (DUF615); Region: DUF615; pfam04751 555778003639 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 555778003640 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 555778003641 glutaminase active site [active] 555778003642 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 555778003643 dimer interface [polypeptide binding]; other site 555778003644 active site 555778003645 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 555778003646 dimer interface [polypeptide binding]; other site 555778003647 active site 555778003648 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 555778003649 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 555778003650 inhibitor-cofactor binding pocket; inhibition site 555778003651 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778003652 catalytic residue [active] 555778003653 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 555778003654 thiamine phosphate binding site [chemical binding]; other site 555778003655 active site 555778003656 pyrophosphate binding site [ion binding]; other site 555778003657 glucokinase, proteobacterial type; Region: glk; TIGR00749 555778003658 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 555778003659 nucleotide binding site [chemical binding]; other site 555778003660 Glucokinase; Region: Glucokinase; cl17310 555778003661 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 555778003662 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 555778003663 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 555778003664 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 555778003665 dimerization interface [polypeptide binding]; other site 555778003666 domain crossover interface; other site 555778003667 redox-dependent activation switch; other site 555778003668 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 555778003669 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 555778003670 GatB domain; Region: GatB_Yqey; smart00845 555778003671 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 555778003672 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 555778003673 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 555778003674 rod shape-determining protein MreB; Provisional; Region: PRK13927 555778003675 MreB and similar proteins; Region: MreB_like; cd10225 555778003676 nucleotide binding site [chemical binding]; other site 555778003677 Mg binding site [ion binding]; other site 555778003678 putative protofilament interaction site [polypeptide binding]; other site 555778003679 RodZ interaction site [polypeptide binding]; other site 555778003680 rod shape-determining protein MreC; Provisional; Region: PRK13922 555778003681 rod shape-determining protein MreC; Region: MreC; pfam04085 555778003682 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 555778003683 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 555778003684 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 555778003685 lipoyl attachment site [posttranslational modification]; other site 555778003686 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 555778003687 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 555778003688 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 555778003689 Walker A motif; other site 555778003690 ATP binding site [chemical binding]; other site 555778003691 Walker B motif; other site 555778003692 arginine finger; other site 555778003693 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 555778003694 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 555778003695 PhnA protein; Region: PhnA; pfam03831 555778003696 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 555778003697 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 555778003698 catalytic triad [active] 555778003699 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 555778003700 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 555778003701 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 555778003702 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 555778003703 active site 555778003704 catalytic tetrad [active] 555778003705 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778003706 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 555778003707 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 555778003708 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 555778003709 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 555778003710 putative active site [active] 555778003711 heme pocket [chemical binding]; other site 555778003712 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 555778003713 putative active site [active] 555778003714 heme pocket [chemical binding]; other site 555778003715 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778003716 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778003717 metal binding site [ion binding]; metal-binding site 555778003718 active site 555778003719 I-site; other site 555778003720 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 555778003721 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 555778003722 Sulfate transporter family; Region: Sulfate_transp; pfam00916 555778003723 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 555778003724 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 555778003725 homodimer interface [polypeptide binding]; other site 555778003726 active site 555778003727 putative chemical substrate binding site [chemical binding]; other site 555778003728 metal binding site [ion binding]; metal-binding site 555778003729 lipoyl synthase; Provisional; Region: PRK05481 555778003730 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 555778003731 FeS/SAM binding site; other site 555778003732 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 555778003733 Protein of unknown function (DUF493); Region: DUF493; pfam04359 555778003734 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 555778003735 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 555778003736 homodimer interface [polypeptide binding]; other site 555778003737 substrate-cofactor binding pocket; other site 555778003738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778003739 catalytic residue [active] 555778003740 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 555778003741 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 555778003742 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 555778003743 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 555778003744 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 555778003745 Sporulation related domain; Region: SPOR; pfam05036 555778003746 Transglycosylase SLT domain; Region: SLT_2; pfam13406 555778003747 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 555778003748 N-acetyl-D-glucosamine binding site [chemical binding]; other site 555778003749 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 555778003750 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 555778003751 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 555778003752 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 555778003753 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 555778003754 dimer interface [polypeptide binding]; other site 555778003755 substrate binding site [chemical binding]; other site 555778003756 metal binding sites [ion binding]; metal-binding site 555778003757 adenylate kinase; Reviewed; Region: adk; PRK00279 555778003758 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 555778003759 AMP-binding site [chemical binding]; other site 555778003760 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 555778003761 OstA-like protein; Region: OstA; cl00844 555778003762 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 555778003763 Organic solvent tolerance protein; Region: OstA_C; pfam04453 555778003764 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 555778003765 SurA N-terminal domain; Region: SurA_N; pfam09312 555778003766 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 555778003767 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 555778003768 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 555778003769 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 555778003770 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 555778003771 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 555778003772 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 555778003773 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 555778003774 putative active site [active] 555778003775 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 555778003776 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 555778003777 S-adenosylmethionine binding site [chemical binding]; other site 555778003778 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 555778003779 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 555778003780 active site 555778003781 metal binding site [ion binding]; metal-binding site 555778003782 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 555778003783 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 555778003784 C-terminal, alpha helical domain of microsomal Prostaglandin E synthase Type 2; Region: GST_C_mPGES2; cd03197 555778003785 dimer interface [polypeptide binding]; other site 555778003786 N-terminal domain interface [polypeptide binding]; other site 555778003787 GRX-like active site [active] 555778003788 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 555778003789 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 555778003790 dimerization interface [polypeptide binding]; other site 555778003791 putative ATP binding site [chemical binding]; other site 555778003792 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 555778003793 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 555778003794 active site 555778003795 substrate binding site [chemical binding]; other site 555778003796 cosubstrate binding site; other site 555778003797 catalytic site [active] 555778003798 cysteine synthase B; Region: cysM; TIGR01138 555778003799 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 555778003800 dimer interface [polypeptide binding]; other site 555778003801 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778003802 catalytic residue [active] 555778003803 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 555778003804 Response regulator receiver domain; Region: Response_reg; pfam00072 555778003805 active site 555778003806 phosphorylation site [posttranslational modification] 555778003807 intermolecular recognition site; other site 555778003808 dimerization interface [polypeptide binding]; other site 555778003809 Hpt domain; Region: Hpt; pfam01627 555778003810 PilZ domain; Region: PilZ; pfam07238 555778003811 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778003812 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778003813 metal binding site [ion binding]; metal-binding site 555778003814 active site 555778003815 I-site; other site 555778003816 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 555778003817 PAS fold; Region: PAS_3; pfam08447 555778003818 putative active site [active] 555778003819 heme pocket [chemical binding]; other site 555778003820 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 555778003821 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 555778003822 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 555778003823 Walker A/P-loop; other site 555778003824 ATP binding site [chemical binding]; other site 555778003825 Q-loop/lid; other site 555778003826 ABC transporter signature motif; other site 555778003827 Walker B; other site 555778003828 D-loop; other site 555778003829 H-loop/switch region; other site 555778003830 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 555778003831 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 555778003832 Walker A/P-loop; other site 555778003833 ATP binding site [chemical binding]; other site 555778003834 Q-loop/lid; other site 555778003835 ABC transporter signature motif; other site 555778003836 Walker B; other site 555778003837 D-loop; other site 555778003838 H-loop/switch region; other site 555778003839 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 555778003840 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 555778003841 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 555778003842 phosphoglucomutase; Validated; Region: PRK07564 555778003843 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 555778003844 active site 555778003845 substrate binding site [chemical binding]; other site 555778003846 metal binding site [ion binding]; metal-binding site 555778003847 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 555778003848 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 555778003849 N-acetyl-D-glucosamine binding site [chemical binding]; other site 555778003850 catalytic residue [active] 555778003851 Protein of unknown function (DUF1249); Region: DUF1249; cl01223 555778003852 Predicted transcriptional regulator [Transcription]; Region: COG1959 555778003853 Transcriptional regulator; Region: Rrf2; cl17282 555778003854 Predicted nuclease (RNAse H fold) [General function prediction only]; Region: COG4328 555778003855 C factor cell-cell signaling protein; Provisional; Region: PRK09009 555778003856 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 555778003857 NAD(P) binding site [chemical binding]; other site 555778003858 active site 555778003859 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 555778003860 DNA photolyase; Region: DNA_photolyase; pfam00875 555778003861 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 555778003862 Major Facilitator Superfamily; Region: MFS_1; pfam07690 555778003863 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 555778003864 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 555778003865 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 555778003866 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 555778003867 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 555778003868 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 555778003869 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 555778003870 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 555778003871 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 555778003872 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 555778003873 Uncharacterized conserved protein [Function unknown]; Region: COG2308 555778003874 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 555778003875 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 555778003876 DNA binding residues [nucleotide binding] 555778003877 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 555778003878 IHF dimer interface [polypeptide binding]; other site 555778003879 IHF - DNA interface [nucleotide binding]; other site 555778003880 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 555778003881 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 555778003882 putative tRNA-binding site [nucleotide binding]; other site 555778003883 B3/4 domain; Region: B3_4; pfam03483 555778003884 tRNA synthetase B5 domain; Region: B5; pfam03484 555778003885 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 555778003886 dimer interface [polypeptide binding]; other site 555778003887 motif 1; other site 555778003888 motif 3; other site 555778003889 motif 2; other site 555778003890 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 555778003891 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 555778003892 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 555778003893 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 555778003894 dimer interface [polypeptide binding]; other site 555778003895 motif 1; other site 555778003896 active site 555778003897 motif 2; other site 555778003898 motif 3; other site 555778003899 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 555778003900 23S rRNA binding site [nucleotide binding]; other site 555778003901 L21 binding site [polypeptide binding]; other site 555778003902 L13 binding site [polypeptide binding]; other site 555778003903 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 555778003904 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 555778003905 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 555778003906 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 555778003907 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 555778003908 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 555778003909 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 555778003910 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 555778003911 active site 555778003912 dimer interface [polypeptide binding]; other site 555778003913 motif 1; other site 555778003914 motif 2; other site 555778003915 motif 3; other site 555778003916 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 555778003917 anticodon binding site; other site 555778003918 Protein of unknown function, DUF484; Region: DUF484; cl17449 555778003919 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 555778003920 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 555778003921 active site 555778003922 DNA binding site [nucleotide binding] 555778003923 Int/Topo IB signature motif; other site 555778003924 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 555778003925 active site 555778003926 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 555778003927 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 555778003928 Walker A motif; other site 555778003929 ATP binding site [chemical binding]; other site 555778003930 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 555778003931 Walker B motif; other site 555778003932 arginine finger; other site 555778003933 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 555778003934 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 555778003935 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 555778003936 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 555778003937 S-adenosylmethionine binding site [chemical binding]; other site 555778003938 Predicted soluble lytic transglycosylase fused to an ABC-type amino acid-binding protein [Cell envelope biogenesis, outer membrane]; Region: COG4623 555778003939 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 555778003940 substrate binding pocket [chemical binding]; other site 555778003941 membrane-bound complex binding site; other site 555778003942 hinge residues; other site 555778003943 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 555778003944 N-acetyl-D-glucosamine binding site [chemical binding]; other site 555778003945 catalytic residue [active] 555778003946 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 555778003947 active site 555778003948 dimer interface [polypeptide binding]; other site 555778003949 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 555778003950 IHF dimer interface [polypeptide binding]; other site 555778003951 IHF - DNA interface [nucleotide binding]; other site 555778003952 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 555778003953 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 555778003954 RNA binding site [nucleotide binding]; other site 555778003955 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 555778003956 RNA binding site [nucleotide binding]; other site 555778003957 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 555778003958 RNA binding site [nucleotide binding]; other site 555778003959 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 555778003960 RNA binding site [nucleotide binding]; other site 555778003961 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 555778003962 RNA binding site [nucleotide binding]; other site 555778003963 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 555778003964 RNA binding site [nucleotide binding]; other site 555778003965 cytidylate kinase; Provisional; Region: cmk; PRK00023 555778003966 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 555778003967 CMP-binding site; other site 555778003968 The sites determining sugar specificity; other site 555778003969 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 555778003970 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 555778003971 hinge; other site 555778003972 active site 555778003973 prephenate dehydrogenase; Validated; Region: PRK08507 555778003974 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 555778003975 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 555778003976 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 555778003977 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778003978 homodimer interface [polypeptide binding]; other site 555778003979 catalytic residue [active] 555778003980 Chorismate mutase type II; Region: CM_2; pfam01817 555778003981 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 555778003982 Prephenate dehydratase; Region: PDT; pfam00800 555778003983 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 555778003984 putative L-Phe binding site [chemical binding]; other site 555778003985 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_3; cd12174 555778003986 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 555778003987 putative ligand binding site [chemical binding]; other site 555778003988 putative NAD binding site [chemical binding]; other site 555778003989 putative catalytic site [active] 555778003990 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 555778003991 L-serine binding site [chemical binding]; other site 555778003992 ACT domain interface; other site 555778003993 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 555778003994 homodimer interface [polypeptide binding]; other site 555778003995 substrate-cofactor binding pocket; other site 555778003996 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778003997 catalytic residue [active] 555778003998 DNA gyrase subunit A; Validated; Region: PRK05560 555778003999 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 555778004000 CAP-like domain; other site 555778004001 active site 555778004002 primary dimer interface [polypeptide binding]; other site 555778004003 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 555778004004 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 555778004005 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 555778004006 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 555778004007 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 555778004008 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 555778004009 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 555778004010 ligand binding site [chemical binding]; other site 555778004011 Mechanosensitive ion channel; Region: MS_channel; pfam00924 555778004012 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 555778004013 N-acetylglutamate synthase; Validated; Region: PRK05279 555778004014 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 555778004015 putative feedback inhibition sensing region; other site 555778004016 putative nucleotide binding site [chemical binding]; other site 555778004017 putative substrate binding site [chemical binding]; other site 555778004018 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 555778004019 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 555778004020 Coenzyme A binding pocket [chemical binding]; other site 555778004021 ornithine carbamoyltransferase; Provisional; Region: PRK00779 555778004022 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 555778004023 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 555778004024 acetylornithine aminotransferase; Provisional; Region: PRK02627 555778004025 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 555778004026 inhibitor-cofactor binding pocket; inhibition site 555778004027 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778004028 catalytic residue [active] 555778004029 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 555778004030 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 555778004031 S-adenosylmethionine binding site [chemical binding]; other site 555778004032 phosphoglycolate phosphatase; Provisional; Region: PRK13222 555778004033 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 555778004034 motif II; other site 555778004035 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 555778004036 dihydroorotase; Provisional; Region: PRK07627 555778004037 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 555778004038 active site 555778004039 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 555778004040 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 555778004041 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 555778004042 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 555778004043 active site 555778004044 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 555778004045 hypothetical protein; Validated; Region: PRK00228 555778004046 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 555778004047 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 555778004048 RNA binding surface [nucleotide binding]; other site 555778004049 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 555778004050 probable active site [active] 555778004051 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 555778004052 Permease; Region: Permease; pfam02405 555778004053 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 555778004054 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 555778004055 Walker A/P-loop; other site 555778004056 ATP binding site [chemical binding]; other site 555778004057 Q-loop/lid; other site 555778004058 ABC transporter signature motif; other site 555778004059 Walker B; other site 555778004060 D-loop; other site 555778004061 H-loop/switch region; other site 555778004062 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 555778004063 mce related protein; Region: MCE; pfam02470 555778004064 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 555778004065 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 555778004066 ATP binding site [chemical binding]; other site 555778004067 Mg++ binding site [ion binding]; other site 555778004068 motif III; other site 555778004069 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 555778004070 nucleotide binding region [chemical binding]; other site 555778004071 ATP-binding site [chemical binding]; other site 555778004072 phosphoenolpyruvate synthase; Validated; Region: PRK06464 555778004073 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 555778004074 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 555778004075 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 555778004076 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 555778004077 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 555778004078 Switch I; other site 555778004079 Switch II; other site 555778004080 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 555778004081 Sulphur transport; Region: Sulf_transp; pfam04143 555778004082 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 555778004083 RNA binding surface [nucleotide binding]; other site 555778004084 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 555778004085 Dehydroquinase class II; Region: DHquinase_II; pfam01220 555778004086 active site 555778004087 trimer interface [polypeptide binding]; other site 555778004088 dimer interface [polypeptide binding]; other site 555778004089 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 555778004090 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 555778004091 carboxyltransferase (CT) interaction site; other site 555778004092 biotinylation site [posttranslational modification]; other site 555778004093 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 555778004094 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 555778004095 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 555778004096 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 555778004097 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 555778004098 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 555778004099 S-adenosylmethionine binding site [chemical binding]; other site 555778004100 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 555778004101 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 555778004102 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 555778004103 dimer interface [polypeptide binding]; other site 555778004104 FMN binding site [chemical binding]; other site 555778004105 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 555778004106 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 555778004107 putative NAD(P) binding site [chemical binding]; other site 555778004108 putative substrate binding site [chemical binding]; other site 555778004109 catalytic Zn binding site [ion binding]; other site 555778004110 structural Zn binding site [ion binding]; other site 555778004111 dimer interface [polypeptide binding]; other site 555778004112 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 555778004113 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 555778004114 HIGH motif; other site 555778004115 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 555778004116 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 555778004117 active site 555778004118 KMSKS motif; other site 555778004119 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 555778004120 tRNA binding surface [nucleotide binding]; other site 555778004121 anticodon binding site; other site 555778004122 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 555778004123 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 555778004124 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 555778004125 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 555778004126 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 555778004127 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 555778004128 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 555778004129 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 555778004130 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 555778004131 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 555778004132 active site 555778004133 hydrophilic channel; other site 555778004134 dimerization interface [polypeptide binding]; other site 555778004135 catalytic residues [active] 555778004136 active site lid [active] 555778004137 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 555778004138 Recombination protein O N terminal; Region: RecO_N; pfam11967 555778004139 Recombination protein O C terminal; Region: RecO_C; pfam02565 555778004140 GTPase Era; Reviewed; Region: era; PRK00089 555778004141 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 555778004142 G1 box; other site 555778004143 GTP/Mg2+ binding site [chemical binding]; other site 555778004144 Switch I region; other site 555778004145 G2 box; other site 555778004146 Switch II region; other site 555778004147 G3 box; other site 555778004148 G4 box; other site 555778004149 G5 box; other site 555778004150 KH domain; Region: KH_2; pfam07650 555778004151 ribonuclease III; Reviewed; Region: rnc; PRK00102 555778004152 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 555778004153 dimerization interface [polypeptide binding]; other site 555778004154 active site 555778004155 metal binding site [ion binding]; metal-binding site 555778004156 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 555778004157 dsRNA binding site [nucleotide binding]; other site 555778004158 signal peptidase I; Provisional; Region: PRK10861 555778004159 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 555778004160 Catalytic site [active] 555778004161 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 555778004162 GTP-binding protein LepA; Provisional; Region: PRK05433 555778004163 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 555778004164 G1 box; other site 555778004165 putative GEF interaction site [polypeptide binding]; other site 555778004166 GTP/Mg2+ binding site [chemical binding]; other site 555778004167 Switch I region; other site 555778004168 G2 box; other site 555778004169 G3 box; other site 555778004170 Switch II region; other site 555778004171 G4 box; other site 555778004172 G5 box; other site 555778004173 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 555778004174 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 555778004175 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 555778004176 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 555778004177 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 555778004178 protein binding site [polypeptide binding]; other site 555778004179 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 555778004180 homoserine dehydrogenase; Provisional; Region: PRK06349 555778004181 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 555778004182 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 555778004183 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 555778004184 aminotransferase; Validated; Region: PRK08175 555778004185 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 555778004186 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778004187 homodimer interface [polypeptide binding]; other site 555778004188 catalytic residue [active] 555778004189 threonine synthase; Reviewed; Region: PRK06721 555778004190 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 555778004191 homodimer interface [polypeptide binding]; other site 555778004192 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778004193 catalytic residue [active] 555778004194 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 555778004195 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 555778004196 active site 555778004197 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 555778004198 beta-hexosaminidase; Provisional; Region: PRK05337 555778004199 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 555778004200 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 555778004201 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 555778004202 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 555778004203 plasma-membrane proton-efflux P-type ATPase; Region: ATPase-IIIA_H; TIGR01647 555778004204 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 555778004205 Soluble P-type ATPase [General function prediction only]; Region: COG4087 555778004206 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 555778004207 Cupin superfamily protein; Region: Cupin_4; pfam08007 555778004208 A domain family that is part of the cupin metalloenzyme superfamily; Region: JmjC; smart00558 555778004209 Cupin-like domain; Region: Cupin_8; pfam13621 555778004210 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 555778004211 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 555778004212 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 555778004213 dinuclear metal binding motif [ion binding]; other site 555778004214 glycoside hydrolase family 64 (beta-1,3-glucanases which produce specific pentasaccharide oligomers) and thaumatin-like proteins; Region: GH64-TLP-SF; cl02511 555778004215 glycoside hydrolase family 64 (beta-1,3-glucanases which produce specific pentasaccharide oligomers) and thaumatin-like proteins; Region: GH64-TLP-SF; cl02511 555778004216 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 555778004217 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 555778004218 catalytic residues [active] 555778004219 dimer interface [polypeptide binding]; other site 555778004220 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 555778004221 active site 555778004222 catalytic site [active] 555778004223 substrate binding site [chemical binding]; other site 555778004224 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 555778004225 GIY-YIG motif/motif A; other site 555778004226 active site 555778004227 catalytic site [active] 555778004228 putative DNA binding site [nucleotide binding]; other site 555778004229 metal binding site [ion binding]; metal-binding site 555778004230 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 555778004231 DNA photolyase; Region: DNA_photolyase; pfam00875 555778004232 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 555778004233 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 555778004234 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 555778004235 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 555778004236 HlyD family secretion protein; Region: HlyD_3; pfam13437 555778004237 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 555778004238 Protein export membrane protein; Region: SecD_SecF; cl14618 555778004239 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 555778004240 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 555778004241 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 555778004242 phage exclusion protein Lit; Provisional; Region: PRK09672 555778004243 Peptidase U49; Region: Peptidase_U49; pfam10463 555778004244 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 555778004245 heme-binding site [chemical binding]; other site 555778004246 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 555778004247 Response regulator receiver domain; Region: Response_reg; pfam00072 555778004248 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 555778004249 active site 555778004250 phosphorylation site [posttranslational modification] 555778004251 intermolecular recognition site; other site 555778004252 dimerization interface [polypeptide binding]; other site 555778004253 TIGR02588 family protein; Region: TIGR02588 555778004254 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 555778004255 active site 555778004256 phosphorylation site [posttranslational modification] 555778004257 intermolecular recognition site; other site 555778004258 dimerization interface [polypeptide binding]; other site 555778004259 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 555778004260 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 555778004261 dimer interface [polypeptide binding]; other site 555778004262 phosphorylation site [posttranslational modification] 555778004263 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 555778004264 ATP binding site [chemical binding]; other site 555778004265 Mg2+ binding site [ion binding]; other site 555778004266 G-X-G motif; other site 555778004267 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 555778004268 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 555778004269 Competence protein; Region: Competence; pfam03772 555778004270 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 555778004271 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 555778004272 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 555778004273 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 555778004274 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 555778004275 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 555778004276 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 555778004277 active site 555778004278 phosphorylation site [posttranslational modification] 555778004279 intermolecular recognition site; other site 555778004280 dimerization interface [polypeptide binding]; other site 555778004281 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 555778004282 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 555778004283 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 555778004284 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778004285 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778004286 metal binding site [ion binding]; metal-binding site 555778004287 active site 555778004288 I-site; other site 555778004289 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 555778004290 dimerization interface [polypeptide binding]; other site 555778004291 substrate binding site [chemical binding]; other site 555778004292 active site 555778004293 calcium binding site [ion binding]; other site 555778004294 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 555778004295 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 555778004296 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 555778004297 HlyD family secretion protein; Region: HlyD_3; pfam13437 555778004298 fumarate hydratase; Reviewed; Region: fumC; PRK00485 555778004299 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 555778004300 tetramer interface [polypeptide binding]; other site 555778004301 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 555778004302 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 555778004303 active site 555778004304 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 555778004305 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 555778004306 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 555778004307 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 555778004308 trimer interface [polypeptide binding]; other site 555778004309 active site 555778004310 UDP-GlcNAc binding site [chemical binding]; other site 555778004311 lipid binding site [chemical binding]; lipid-binding site 555778004312 periplasmic chaperone; Provisional; Region: PRK10780 555778004313 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 555778004314 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 555778004315 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 555778004316 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 555778004317 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 555778004318 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 555778004319 Surface antigen; Region: Bac_surface_Ag; pfam01103 555778004320 zinc metallopeptidase RseP; Provisional; Region: PRK10779 555778004321 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 555778004322 active site 555778004323 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 555778004324 protein binding site [polypeptide binding]; other site 555778004325 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 555778004326 protein binding site [polypeptide binding]; other site 555778004327 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 555778004328 putative substrate binding region [chemical binding]; other site 555778004329 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 555778004330 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 555778004331 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 555778004332 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 555778004333 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 555778004334 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 555778004335 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 555778004336 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 555778004337 catalytic residue [active] 555778004338 putative FPP diphosphate binding site; other site 555778004339 putative FPP binding hydrophobic cleft; other site 555778004340 dimer interface [polypeptide binding]; other site 555778004341 putative IPP diphosphate binding site; other site 555778004342 ribosome recycling factor; Reviewed; Region: frr; PRK00083 555778004343 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 555778004344 hinge region; other site 555778004345 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 555778004346 putative nucleotide binding site [chemical binding]; other site 555778004347 uridine monophosphate binding site [chemical binding]; other site 555778004348 homohexameric interface [polypeptide binding]; other site 555778004349 elongation factor Ts; Provisional; Region: tsf; PRK09377 555778004350 UBA/TS-N domain; Region: UBA; pfam00627 555778004351 Elongation factor TS; Region: EF_TS; pfam00889 555778004352 Elongation factor TS; Region: EF_TS; pfam00889 555778004353 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 555778004354 rRNA interaction site [nucleotide binding]; other site 555778004355 S8 interaction site; other site 555778004356 putative laminin-1 binding site; other site 555778004357 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 555778004358 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 555778004359 Peptidase family M50; Region: Peptidase_M50; pfam02163 555778004360 active site 555778004361 putative substrate binding region [chemical binding]; other site 555778004362 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 555778004363 intracellular septation protein A; Reviewed; Region: PRK00259 555778004364 YCII-related domain; Region: YCII; cl00999 555778004365 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 555778004366 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 555778004367 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 555778004368 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 555778004369 ligand binding site [chemical binding]; other site 555778004370 flexible hinge region; other site 555778004371 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 555778004372 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 555778004373 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 555778004374 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 555778004375 RNase E interface [polypeptide binding]; other site 555778004376 trimer interface [polypeptide binding]; other site 555778004377 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 555778004378 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 555778004379 RNase E interface [polypeptide binding]; other site 555778004380 trimer interface [polypeptide binding]; other site 555778004381 active site 555778004382 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 555778004383 putative nucleic acid binding region [nucleotide binding]; other site 555778004384 G-X-X-G motif; other site 555778004385 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 555778004386 RNA binding site [nucleotide binding]; other site 555778004387 domain interface; other site 555778004388 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 555778004389 16S/18S rRNA binding site [nucleotide binding]; other site 555778004390 S13e-L30e interaction site [polypeptide binding]; other site 555778004391 25S rRNA binding site [nucleotide binding]; other site 555778004392 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 555778004393 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 555778004394 RNA binding site [nucleotide binding]; other site 555778004395 active site 555778004396 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 555778004397 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 555778004398 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 555778004399 translation initiation factor IF-2; Region: IF-2; TIGR00487 555778004400 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 555778004401 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 555778004402 G1 box; other site 555778004403 putative GEF interaction site [polypeptide binding]; other site 555778004404 GTP/Mg2+ binding site [chemical binding]; other site 555778004405 Switch I region; other site 555778004406 G2 box; other site 555778004407 G3 box; other site 555778004408 Switch II region; other site 555778004409 G4 box; other site 555778004410 G5 box; other site 555778004411 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 555778004412 Translation-initiation factor 2; Region: IF-2; pfam11987 555778004413 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 555778004414 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 555778004415 NusA N-terminal domain; Region: NusA_N; pfam08529 555778004416 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 555778004417 RNA binding site [nucleotide binding]; other site 555778004418 homodimer interface [polypeptide binding]; other site 555778004419 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 555778004420 G-X-X-G motif; other site 555778004421 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 555778004422 G-X-X-G motif; other site 555778004423 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 555778004424 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 555778004425 ribosome maturation protein RimP; Reviewed; Region: PRK00092 555778004426 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 555778004427 putative oligomer interface [polypeptide binding]; other site 555778004428 putative RNA binding site [nucleotide binding]; other site 555778004429 chaperone protein DnaJ; Provisional; Region: PRK10767 555778004430 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 555778004431 HSP70 interaction site [polypeptide binding]; other site 555778004432 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 555778004433 substrate binding site [polypeptide binding]; other site 555778004434 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 555778004435 Zn binding sites [ion binding]; other site 555778004436 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 555778004437 dimer interface [polypeptide binding]; other site 555778004438 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 555778004439 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 555778004440 nucleotide binding site [chemical binding]; other site 555778004441 GrpE; Region: GrpE; pfam01025 555778004442 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 555778004443 dimer interface [polypeptide binding]; other site 555778004444 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 555778004445 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 555778004446 ATP-NAD kinase; Region: NAD_kinase; pfam01513 555778004447 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 555778004448 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 555778004449 Walker A/P-loop; other site 555778004450 ATP binding site [chemical binding]; other site 555778004451 Q-loop/lid; other site 555778004452 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 555778004453 ABC transporter signature motif; other site 555778004454 Walker B; other site 555778004455 D-loop; other site 555778004456 H-loop/switch region; other site 555778004457 Cytochrome c [Energy production and conversion]; Region: COG3258 555778004458 Cytochrome c; Region: Cytochrom_C; pfam00034 555778004459 Cytochrome c; Region: Cytochrom_C; cl11414 555778004460 Cytochrome c; Region: Cytochrom_C; cl11414 555778004461 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 555778004462 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 555778004463 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 555778004464 Peptidase M16C associated; Region: M16C_assoc; pfam08367 555778004465 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 555778004466 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 555778004467 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 555778004468 S-adenosylmethionine binding site [chemical binding]; other site 555778004469 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 555778004470 putative acyl-acceptor binding pocket; other site 555778004471 Cytochrome P450; Region: p450; pfam00067 555778004472 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 555778004473 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 555778004474 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 555778004475 TIGR01777 family protein; Region: yfcH 555778004476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 555778004477 NAD(P) binding site [chemical binding]; other site 555778004478 active site 555778004479 polysaccharide export protein Wza; Provisional; Region: PRK15078 555778004480 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 555778004481 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 555778004482 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 555778004483 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 555778004484 NADP binding site [chemical binding]; other site 555778004485 active site 555778004486 putative substrate binding site [chemical binding]; other site 555778004487 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 555778004488 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 555778004489 NAD binding site [chemical binding]; other site 555778004490 substrate binding site [chemical binding]; other site 555778004491 homodimer interface [polypeptide binding]; other site 555778004492 active site 555778004493 hypothetical protein; Reviewed; Region: PRK12275 555778004494 four helix bundle protein; Region: TIGR02436 555778004495 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 555778004496 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 555778004497 substrate binding site; other site 555778004498 tetramer interface; other site 555778004499 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 555778004500 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 555778004501 Probable Catalytic site; other site 555778004502 metal-binding site 555778004503 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 555778004504 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 555778004505 Probable Catalytic site; other site 555778004506 metal-binding site 555778004507 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 555778004508 Protein of unknown function (DUF563); Region: DUF563; pfam04577 555778004509 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 555778004510 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 555778004511 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 555778004512 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 555778004513 Active Sites [active] 555778004514 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 555778004515 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 555778004516 CysD dimerization site [polypeptide binding]; other site 555778004517 G1 box; other site 555778004518 putative GEF interaction site [polypeptide binding]; other site 555778004519 GTP/Mg2+ binding site [chemical binding]; other site 555778004520 Switch I region; other site 555778004521 G2 box; other site 555778004522 G3 box; other site 555778004523 Switch II region; other site 555778004524 G4 box; other site 555778004525 G5 box; other site 555778004526 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 555778004527 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 555778004528 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 555778004529 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 555778004530 TrkA-C domain; Region: TrkA_C; pfam02080 555778004531 TrkA-C domain; Region: TrkA_C; pfam02080 555778004532 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 555778004533 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 555778004534 ligand-binding site [chemical binding]; other site 555778004535 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 555778004536 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 555778004537 active site 555778004538 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 555778004539 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 555778004540 Probable Catalytic site; other site 555778004541 metal-binding site 555778004542 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 555778004543 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 555778004544 Probable Catalytic site; other site 555778004545 metal-binding site 555778004546 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 555778004547 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 555778004548 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 555778004549 Walker A/P-loop; other site 555778004550 ATP binding site [chemical binding]; other site 555778004551 Q-loop/lid; other site 555778004552 ABC transporter signature motif; other site 555778004553 Walker B; other site 555778004554 D-loop; other site 555778004555 H-loop/switch region; other site 555778004556 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 555778004557 ABC-2 type transporter; Region: ABC2_membrane; cl17235 555778004558 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 555778004559 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 555778004560 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 555778004561 substrate-cofactor binding pocket; other site 555778004562 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778004563 catalytic residue [active] 555778004564 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 555778004565 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 555778004566 active site 555778004567 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 555778004568 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 555778004569 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 555778004570 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 555778004571 Enoylreductase; Region: PKS_ER; smart00829 555778004572 NAD(P) binding site [chemical binding]; other site 555778004573 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 555778004574 KR domain; Region: KR; pfam08659 555778004575 putative NADP binding site [chemical binding]; other site 555778004576 active site 555778004577 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 555778004578 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 555778004579 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 555778004580 dimer interface [polypeptide binding]; other site 555778004581 active site 555778004582 metal binding site [ion binding]; metal-binding site 555778004583 glutathione binding site [chemical binding]; other site 555778004584 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 555778004585 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 555778004586 homodimer interface [polypeptide binding]; other site 555778004587 substrate-cofactor binding pocket; other site 555778004588 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778004589 catalytic residue [active] 555778004590 tRNA pseudouridine synthase C; Region: DUF446; cl01187 555778004591 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 555778004592 dimer interface [polypeptide binding]; other site 555778004593 substrate binding site [chemical binding]; other site 555778004594 ATP binding site [chemical binding]; other site 555778004595 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 555778004596 recombination factor protein RarA; Reviewed; Region: PRK13342 555778004597 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 555778004598 Walker A motif; other site 555778004599 ATP binding site [chemical binding]; other site 555778004600 Walker B motif; other site 555778004601 arginine finger; other site 555778004602 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 555778004603 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 555778004604 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 555778004605 Coenzyme A binding pocket [chemical binding]; other site 555778004606 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 555778004607 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 555778004608 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 555778004609 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 555778004610 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 555778004611 Stringent starvation protein B; Region: SspB; cl01120 555778004612 stringent starvation protein A; Provisional; Region: sspA; PRK09481 555778004613 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 555778004614 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 555778004615 dimer interface [polypeptide binding]; other site 555778004616 N-terminal domain interface [polypeptide binding]; other site 555778004617 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 555778004618 putative active site [active] 555778004619 YdjC motif; other site 555778004620 Mg binding site [ion binding]; other site 555778004621 putative homodimer interface [polypeptide binding]; other site 555778004622 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 555778004623 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 555778004624 GtrA-like protein; Region: GtrA; pfam04138 555778004625 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 555778004626 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 555778004627 Ligand binding site; other site 555778004628 Putative Catalytic site; other site 555778004629 DXD motif; other site 555778004630 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 555778004631 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 555778004632 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 555778004633 S-adenosylmethionine binding site [chemical binding]; other site 555778004634 RnfH family Ubiquitin; Region: Ub-RnfH; pfam03658 555778004635 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 555778004636 putative coenzyme Q binding site [chemical binding]; other site 555778004637 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 555778004638 SmpB-tmRNA interface; other site 555778004639 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 555778004640 dimerization interface [polypeptide binding]; other site 555778004641 putative DNA binding site [nucleotide binding]; other site 555778004642 putative Zn2+ binding site [ion binding]; other site 555778004643 Low molecular weight phosphatase family; Region: LMWPc; cl00105 555778004644 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 555778004645 active site 555778004646 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 555778004647 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 555778004648 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 555778004649 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; cl17904 555778004650 putative substrate translocation pore; other site 555778004651 AAA domain; Region: AAA_23; pfam13476 555778004652 P-loop containing region of AAA domain; Region: AAA_29; cl17516 555778004653 AAA domain; Region: AAA_21; pfam13304 555778004654 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 555778004655 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 555778004656 Part of AAA domain; Region: AAA_19; pfam13245 555778004657 Family description; Region: UvrD_C_2; pfam13538 555778004658 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 555778004659 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 555778004660 dimerization interface [polypeptide binding]; other site 555778004661 ATP binding site [chemical binding]; other site 555778004662 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 555778004663 dimerization interface [polypeptide binding]; other site 555778004664 ATP binding site [chemical binding]; other site 555778004665 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 555778004666 putative active site [active] 555778004667 catalytic triad [active] 555778004668 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 555778004669 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 555778004670 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 555778004671 FlgN protein; Region: FlgN; pfam05130 555778004672 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 555778004673 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 555778004674 S-adenosylmethionine binding site [chemical binding]; other site 555778004675 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 555778004676 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 555778004677 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 555778004678 P loop; other site 555778004679 GTP binding site [chemical binding]; other site 555778004680 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 555778004681 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 555778004682 Walker A/P-loop; other site 555778004683 ATP binding site [chemical binding]; other site 555778004684 Q-loop/lid; other site 555778004685 ABC transporter signature motif; other site 555778004686 Walker B; other site 555778004687 D-loop; other site 555778004688 H-loop/switch region; other site 555778004689 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 555778004690 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 555778004691 HAMP domain; Region: HAMP; pfam00672 555778004692 dimerization interface [polypeptide binding]; other site 555778004693 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 555778004694 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 555778004695 dimer interface [polypeptide binding]; other site 555778004696 putative CheW interface [polypeptide binding]; other site 555778004697 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 555778004698 substrate binding pocket [chemical binding]; other site 555778004699 substrate-Mg2+ binding site; other site 555778004700 aspartate-rich region 1; other site 555778004701 aspartate-rich region 2; other site 555778004702 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 555778004703 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 555778004704 NAD(P) binding site [chemical binding]; other site 555778004705 active site 555778004706 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 555778004707 Domain of unknown function DUF87; Region: DUF87; pfam01935 555778004708 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 555778004709 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 555778004710 dimer interface [polypeptide binding]; other site 555778004711 TPP-binding site [chemical binding]; other site 555778004712 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 555778004713 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 555778004714 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 555778004715 E3 interaction surface; other site 555778004716 lipoyl attachment site [posttranslational modification]; other site 555778004717 e3 binding domain; Region: E3_binding; pfam02817 555778004718 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 555778004719 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 555778004720 E3 interaction surface; other site 555778004721 lipoyl attachment site [posttranslational modification]; other site 555778004722 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 555778004723 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 555778004724 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 555778004725 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 555778004726 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 555778004727 SnoaL-like domain; Region: SnoaL_3; pfam13474 555778004728 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 555778004729 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 555778004730 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 555778004731 active site 555778004732 (T/H)XGH motif; other site 555778004733 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 555778004734 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 555778004735 seryl-tRNA synthetase; Provisional; Region: PRK05431 555778004736 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 555778004737 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 555778004738 dimer interface [polypeptide binding]; other site 555778004739 active site 555778004740 motif 1; other site 555778004741 motif 2; other site 555778004742 motif 3; other site 555778004743 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 555778004744 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 555778004745 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 555778004746 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 555778004747 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 555778004748 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 555778004749 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 555778004750 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 555778004751 ATP-grasp domain; Region: ATP-grasp_4; cl17255 555778004752 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 555778004753 substrate binding site [chemical binding]; other site 555778004754 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 555778004755 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 555778004756 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 555778004757 catalytic site [active] 555778004758 subunit interface [polypeptide binding]; other site 555778004759 dihydrodipicolinate reductase; Provisional; Region: PRK00048 555778004760 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 555778004761 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 555778004762 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 555778004763 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 555778004764 active site residue [active] 555778004765 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 555778004766 active site residue [active] 555778004767 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 555778004768 catalytic site [active] 555778004769 putative active site [active] 555778004770 putative substrate binding site [chemical binding]; other site 555778004771 dimer interface [polypeptide binding]; other site 555778004772 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 555778004773 MgtE intracellular N domain; Region: MgtE_N; smart00924 555778004774 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 555778004775 Divalent cation transporter; Region: MgtE; pfam01769 555778004776 GTPase RsgA; Reviewed; Region: PRK12288 555778004777 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 555778004778 RNA binding site [nucleotide binding]; other site 555778004779 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 555778004780 GTPase/Zn-binding domain interface [polypeptide binding]; other site 555778004781 GTP/Mg2+ binding site [chemical binding]; other site 555778004782 G4 box; other site 555778004783 G5 box; other site 555778004784 G1 box; other site 555778004785 Switch I region; other site 555778004786 G2 box; other site 555778004787 G3 box; other site 555778004788 Switch II region; other site 555778004789 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 555778004790 nucleotide binding site/active site [active] 555778004791 HIT family signature motif; other site 555778004792 catalytic residue [active] 555778004793 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 555778004794 N-acetyl-D-glucosamine binding site [chemical binding]; other site 555778004795 catalytic residue [active] 555778004796 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 555778004797 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 555778004798 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 555778004799 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 555778004800 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 555778004801 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 555778004802 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 555778004803 Coenzyme A binding pocket [chemical binding]; other site 555778004804 2-isopropylmalate synthase; Validated; Region: PRK00915 555778004805 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 555778004806 active site 555778004807 catalytic residues [active] 555778004808 metal binding site [ion binding]; metal-binding site 555778004809 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 555778004810 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 555778004811 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 555778004812 DNA binding residues [nucleotide binding] 555778004813 B12 binding domain; Region: B12-binding_2; cl03653 555778004814 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 555778004815 PAS domain; Region: PAS_9; pfam13426 555778004816 putative active site [active] 555778004817 heme pocket [chemical binding]; other site 555778004818 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 555778004819 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 555778004820 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 555778004821 Walker A motif; other site 555778004822 ATP binding site [chemical binding]; other site 555778004823 Walker B motif; other site 555778004824 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 555778004825 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 555778004826 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 555778004827 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 555778004828 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 555778004829 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 555778004830 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 555778004831 CoA-binding site [chemical binding]; other site 555778004832 ATP-binding [chemical binding]; other site 555778004833 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 555778004834 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 555778004835 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 555778004836 Walker A motif; other site 555778004837 ATP binding site [chemical binding]; other site 555778004838 Walker B motif; other site 555778004839 arginine finger; other site 555778004840 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 555778004841 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 555778004842 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 555778004843 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 555778004844 dimer interface [polypeptide binding]; other site 555778004845 phosphorylation site [posttranslational modification] 555778004846 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 555778004847 ATP binding site [chemical binding]; other site 555778004848 Mg2+ binding site [ion binding]; other site 555778004849 G-X-G motif; other site 555778004850 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 555778004851 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 555778004852 active site 555778004853 phosphorylation site [posttranslational modification] 555778004854 intermolecular recognition site; other site 555778004855 dimerization interface [polypeptide binding]; other site 555778004856 Response regulator receiver domain; Region: Response_reg; pfam00072 555778004857 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 555778004858 active site 555778004859 phosphorylation site [posttranslational modification] 555778004860 intermolecular recognition site; other site 555778004861 dimerization interface [polypeptide binding]; other site 555778004862 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 555778004863 DNA binding residues [nucleotide binding] 555778004864 dimerization interface [polypeptide binding]; other site 555778004865 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 555778004866 metal ion-dependent adhesion site (MIDAS); other site 555778004867 hypothetical protein; Validated; Region: PRK07581 555778004868 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 555778004869 formamidase; Provisional; Region: amiF; PRK13287 555778004870 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 555778004871 multimer interface [polypeptide binding]; other site 555778004872 active site 555778004873 catalytic triad [active] 555778004874 dimer interface [polypeptide binding]; other site 555778004875 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 555778004876 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 555778004877 Na binding site [ion binding]; other site 555778004878 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 555778004879 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 555778004880 multimer interface [polypeptide binding]; other site 555778004881 active site 555778004882 catalytic triad [active] 555778004883 dimer interface [polypeptide binding]; other site 555778004884 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 555778004885 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 555778004886 Walker A/P-loop; other site 555778004887 ATP binding site [chemical binding]; other site 555778004888 Q-loop/lid; other site 555778004889 ABC transporter signature motif; other site 555778004890 Walker B; other site 555778004891 D-loop; other site 555778004892 H-loop/switch region; other site 555778004893 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 555778004894 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 555778004895 Walker A/P-loop; other site 555778004896 ATP binding site [chemical binding]; other site 555778004897 Q-loop/lid; other site 555778004898 ABC transporter signature motif; other site 555778004899 Walker B; other site 555778004900 D-loop; other site 555778004901 H-loop/switch region; other site 555778004902 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 555778004903 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 555778004904 TM-ABC transporter signature motif; other site 555778004905 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 555778004906 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 555778004907 TM-ABC transporter signature motif; other site 555778004908 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 555778004909 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 555778004910 putative ligand binding site [chemical binding]; other site 555778004911 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 555778004912 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 555778004913 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 555778004914 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 555778004915 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 555778004916 NADP binding site [chemical binding]; other site 555778004917 dimer interface [polypeptide binding]; other site 555778004918 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 555778004919 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 555778004920 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 555778004921 classical (c) SDRs; Region: SDR_c; cd05233 555778004922 NAD(P) binding site [chemical binding]; other site 555778004923 active site 555778004924 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 555778004925 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 555778004926 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 555778004927 SnoaL-like domain; Region: SnoaL_2; pfam12680 555778004928 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 555778004929 N-acetyl-D-glucosamine binding site [chemical binding]; other site 555778004930 catalytic residue [active] 555778004931 conjugal transfer protein TraB; Provisional; Region: PRK13825 555778004932 DNA topoisomerase III; Provisional; Region: PRK07726 555778004933 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 555778004934 active site 555778004935 putative interdomain interaction site [polypeptide binding]; other site 555778004936 putative metal-binding site [ion binding]; other site 555778004937 putative nucleotide binding site [chemical binding]; other site 555778004938 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 555778004939 domain I; other site 555778004940 DNA binding groove [nucleotide binding] 555778004941 phosphate binding site [ion binding]; other site 555778004942 domain II; other site 555778004943 domain III; other site 555778004944 nucleotide binding site [chemical binding]; other site 555778004945 catalytic site [active] 555778004946 domain IV; other site 555778004947 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 555778004948 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 555778004949 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 555778004950 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 555778004951 conjugal transfer protein TrbE; Provisional; Region: PRK13891 555778004952 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 555778004953 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 555778004954 TrbC/VIRB2 family; Region: TrbC; cl01583 555778004955 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 555778004956 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 555778004957 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 555778004958 Walker A motif; other site 555778004959 hexamer interface [polypeptide binding]; other site 555778004960 ATP binding site [chemical binding]; other site 555778004961 Walker B motif; other site 555778004962 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 555778004963 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 555778004964 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 555778004965 non-specific DNA binding site [nucleotide binding]; other site 555778004966 salt bridge; other site 555778004967 sequence-specific DNA binding site [nucleotide binding]; other site 555778004968 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 555778004969 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 555778004970 salt bridge; other site 555778004971 non-specific DNA binding site [nucleotide binding]; other site 555778004972 sequence-specific DNA binding site [nucleotide binding]; other site 555778004973 Toprim-like; Region: Toprim_2; pfam13155 555778004974 RES domain; Region: RES; pfam08808 555778004975 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 555778004976 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 555778004977 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 555778004978 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 555778004979 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 555778004980 Protein of unknown function, DUF462; Region: DUF462; cl01190 555778004981 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 555778004982 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 555778004983 Walker A motif; other site 555778004984 ATP binding site [chemical binding]; other site 555778004985 Walker B motif; other site 555778004986 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 555778004987 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 555778004988 dimer interface [polypeptide binding]; other site 555778004989 ssDNA binding site [nucleotide binding]; other site 555778004990 tetramer (dimer of dimers) interface [polypeptide binding]; other site 555778004991 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 555778004992 Isochorismatase family; Region: Isochorismatase; pfam00857 555778004993 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 555778004994 catalytic triad [active] 555778004995 conserved cis-peptide bond; other site 555778004996 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 555778004997 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 555778004998 folate binding site [chemical binding]; other site 555778004999 NADP+ binding site [chemical binding]; other site 555778005000 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 555778005001 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 555778005002 Predicted ATPase [General function prediction only]; Region: COG3911 555778005003 AAA domain; Region: AAA_28; pfam13521 555778005004 Uncharacterized conserved protein [Function unknown]; Region: COG3791 555778005005 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 555778005006 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 555778005007 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 555778005008 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 555778005009 Coenzyme A binding pocket [chemical binding]; other site 555778005010 VirB8 protein; Region: VirB8; cl01500 555778005011 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 555778005012 VirB7 interaction site; other site 555778005013 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 555778005014 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 555778005015 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 555778005016 P-loop; other site 555778005017 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 555778005018 Magnesium ion binding site [ion binding]; other site 555778005019 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 555778005020 Magnesium ion binding site [ion binding]; other site 555778005021 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 555778005022 ParB-like nuclease domain; Region: ParB; smart00470 555778005023 Excisionase-like protein; Region: Exc; pfam07825 555778005024 Bacteriophage lambda integrase, N-terminal domain; Region: Phage_integ_N; pfam09003 555778005025 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 555778005026 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 555778005027 active site 555778005028 DNA binding site [nucleotide binding] 555778005029 Int/Topo IB signature motif; other site 555778005030 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 555778005031 Low molecular weight phosphatase family; Region: LMWPc; cd00115 555778005032 active site 555778005033 amino acid transporter; Region: 2A0306; TIGR00909 555778005034 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 555778005035 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 555778005036 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 555778005037 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 555778005038 substrate binding pocket [chemical binding]; other site 555778005039 chain length determination region; other site 555778005040 substrate-Mg2+ binding site; other site 555778005041 catalytic residues [active] 555778005042 aspartate-rich region 1; other site 555778005043 active site lid residues [active] 555778005044 aspartate-rich region 2; other site 555778005045 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 555778005046 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 555778005047 TPP-binding site; other site 555778005048 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 555778005049 PYR/PP interface [polypeptide binding]; other site 555778005050 dimer interface [polypeptide binding]; other site 555778005051 TPP binding site [chemical binding]; other site 555778005052 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 555778005053 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 555778005054 active site 555778005055 putative GTP cyclohydrolase; Provisional; Region: PRK13674 555778005056 PAS domain S-box; Region: sensory_box; TIGR00229 555778005057 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 555778005058 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778005059 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778005060 metal binding site [ion binding]; metal-binding site 555778005061 active site 555778005062 I-site; other site 555778005063 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 555778005064 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 555778005065 active site 555778005066 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 555778005067 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 555778005068 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 555778005069 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 555778005070 ligand binding site [chemical binding]; other site 555778005071 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 555778005072 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 555778005073 PAS domain; Region: PAS_9; pfam13426 555778005074 putative active site [active] 555778005075 heme pocket [chemical binding]; other site 555778005076 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778005077 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778005078 metal binding site [ion binding]; metal-binding site 555778005079 active site 555778005080 I-site; other site 555778005081 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 555778005082 DNA polymerase I; Provisional; Region: PRK05755 555778005083 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 555778005084 active site 555778005085 metal binding site 1 [ion binding]; metal-binding site 555778005086 putative 5' ssDNA interaction site; other site 555778005087 metal binding site 3; metal-binding site 555778005088 metal binding site 2 [ion binding]; metal-binding site 555778005089 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 555778005090 putative DNA binding site [nucleotide binding]; other site 555778005091 putative metal binding site [ion binding]; other site 555778005092 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 555778005093 active site 555778005094 catalytic site [active] 555778005095 substrate binding site [chemical binding]; other site 555778005096 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 555778005097 active site 555778005098 DNA binding site [nucleotide binding] 555778005099 catalytic site [active] 555778005100 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 555778005101 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 555778005102 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 555778005103 putative active site [active] 555778005104 putative substrate binding site [chemical binding]; other site 555778005105 ATP binding site [chemical binding]; other site 555778005106 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 555778005107 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 555778005108 FMN binding site [chemical binding]; other site 555778005109 active site 555778005110 catalytic residues [active] 555778005111 substrate binding site [chemical binding]; other site 555778005112 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 555778005113 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 555778005114 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 555778005115 ATP binding site [chemical binding]; other site 555778005116 substrate interface [chemical binding]; other site 555778005117 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778005118 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778005119 metal binding site [ion binding]; metal-binding site 555778005120 active site 555778005121 I-site; other site 555778005122 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 555778005123 heme-binding site [chemical binding]; other site 555778005124 GAF domain; Region: GAF_2; pfam13185 555778005125 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 555778005126 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 555778005127 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 555778005128 active site 555778005129 NTP binding site [chemical binding]; other site 555778005130 metal binding triad [ion binding]; metal-binding site 555778005131 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 555778005132 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 555778005133 Zn2+ binding site [ion binding]; other site 555778005134 Mg2+ binding site [ion binding]; other site 555778005135 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 555778005136 catalytic core [active] 555778005137 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 555778005138 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 555778005139 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 555778005140 amidase catalytic site [active] 555778005141 substrate binding site [chemical binding]; other site 555778005142 Zn binding residues [ion binding]; other site 555778005143 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 555778005144 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 555778005145 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 555778005146 EamA-like transporter family; Region: EamA; pfam00892 555778005147 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 555778005148 EamA-like transporter family; Region: EamA; pfam00892 555778005149 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 555778005150 Competence-damaged protein; Region: CinA; pfam02464 555778005151 hypothetical protein; Provisional; Region: PRK04233 555778005152 SEC-C motif; Region: SEC-C; pfam02810 555778005153 Domain of unknown function DUF77; Region: DUF77; pfam01910 555778005154 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 555778005155 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 555778005156 catalytic triad [active] 555778005157 putative active site [active] 555778005158 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 555778005159 catalytic residues [active] 555778005160 DinB family; Region: DinB; cl17821 555778005161 DinB superfamily; Region: DinB_2; pfam12867 555778005162 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 555778005163 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 555778005164 Synaptobrevin; Region: Synaptobrevin; pfam00957 555778005165 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 555778005166 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 555778005167 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 555778005168 tartrate dehydrogenase; Region: TTC; TIGR02089 555778005169 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 555778005170 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 555778005171 substrate binding site [chemical binding]; other site 555778005172 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 555778005173 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 555778005174 substrate binding site [chemical binding]; other site 555778005175 ligand binding site [chemical binding]; other site 555778005176 Transcriptional regulator [Transcription]; Region: LysR; COG0583 555778005177 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 555778005178 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 555778005179 dimerization interface [polypeptide binding]; other site 555778005180 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 555778005181 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 555778005182 FMN binding site [chemical binding]; other site 555778005183 active site 555778005184 substrate binding site [chemical binding]; other site 555778005185 catalytic residue [active] 555778005186 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 555778005187 Cupin domain; Region: Cupin_2; pfam07883 555778005188 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 555778005189 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 555778005190 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 555778005191 Ligand binding site; other site 555778005192 oligomer interface; other site 555778005193 Uncharacterized conserved protein [Function unknown]; Region: COG2835 555778005194 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 555778005195 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 555778005196 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 555778005197 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 555778005198 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 555778005199 Walker A/P-loop; other site 555778005200 ATP binding site [chemical binding]; other site 555778005201 Q-loop/lid; other site 555778005202 ABC transporter signature motif; other site 555778005203 Walker B; other site 555778005204 D-loop; other site 555778005205 H-loop/switch region; other site 555778005206 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 555778005207 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 555778005208 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 555778005209 conserved hypothetical protein; Region: TIGR02231 555778005210 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 555778005211 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 555778005212 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 555778005213 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 555778005214 nitrilase; Region: PLN02798 555778005215 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 555778005216 putative active site [active] 555778005217 catalytic triad [active] 555778005218 dimer interface [polypeptide binding]; other site 555778005219 TIGR02099 family protein; Region: TIGR02099 555778005220 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 555778005221 ribonuclease G; Provisional; Region: PRK11712 555778005222 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 555778005223 homodimer interface [polypeptide binding]; other site 555778005224 oligonucleotide binding site [chemical binding]; other site 555778005225 Maf-like protein; Region: Maf; pfam02545 555778005226 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 555778005227 active site 555778005228 dimer interface [polypeptide binding]; other site 555778005229 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 555778005230 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 555778005231 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 555778005232 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 555778005233 active site 555778005234 (T/H)XGH motif; other site 555778005235 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 555778005236 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 555778005237 putative catalytic cysteine [active] 555778005238 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 555778005239 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 555778005240 Lipopolysaccharide-assembly; Region: LptE; pfam04390 555778005241 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 555778005242 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 555778005243 HIGH motif; other site 555778005244 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 555778005245 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 555778005246 active site 555778005247 KMSKS motif; other site 555778005248 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 555778005249 tRNA binding surface [nucleotide binding]; other site 555778005250 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 555778005251 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 555778005252 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 555778005253 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 555778005254 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 555778005255 Family of unknown function (DUF490); Region: DUF490; pfam04357 555778005256 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 555778005257 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 555778005258 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 555778005259 Surface antigen; Region: Bac_surface_Ag; pfam01103 555778005260 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 555778005261 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 555778005262 Mg2+ binding site [ion binding]; other site 555778005263 G-X-G motif; other site 555778005264 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 555778005265 anchoring element; other site 555778005266 dimer interface [polypeptide binding]; other site 555778005267 ATP binding site [chemical binding]; other site 555778005268 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 555778005269 active site 555778005270 metal binding site [ion binding]; metal-binding site 555778005271 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 555778005272 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 555778005273 EamA-like transporter family; Region: EamA; pfam00892 555778005274 EamA-like transporter family; Region: EamA; pfam00892 555778005275 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 555778005276 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 555778005277 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 555778005278 binding surface 555778005279 TPR motif; other site 555778005280 ribonuclease E; Reviewed; Region: rne; PRK10811 555778005281 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 555778005282 homodimer interface [polypeptide binding]; other site 555778005283 oligonucleotide binding site [chemical binding]; other site 555778005284 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 555778005285 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 555778005286 RNA binding surface [nucleotide binding]; other site 555778005287 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 555778005288 active site 555778005289 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 555778005290 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 555778005291 active site 555778005292 motif I; other site 555778005293 motif II; other site 555778005294 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 555778005295 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 555778005296 tandem repeat interface [polypeptide binding]; other site 555778005297 oligomer interface [polypeptide binding]; other site 555778005298 active site residues [active] 555778005299 Uncharacterized conserved protein [Function unknown]; Region: COG2127 555778005300 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 555778005301 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 555778005302 Walker A motif; other site 555778005303 ATP binding site [chemical binding]; other site 555778005304 Walker B motif; other site 555778005305 arginine finger; other site 555778005306 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 555778005307 Walker A motif; other site 555778005308 ATP binding site [chemical binding]; other site 555778005309 Walker B motif; other site 555778005310 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 555778005311 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 555778005312 rRNA binding site [nucleotide binding]; other site 555778005313 predicted 30S ribosome binding site; other site 555778005314 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 555778005315 putative FMN binding site [chemical binding]; other site 555778005316 V4R domain; Region: V4R; cl15268 555778005317 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 555778005318 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 555778005319 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 555778005320 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08147 555778005321 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 555778005322 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 555778005323 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 555778005324 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 555778005325 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 555778005326 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 555778005327 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 555778005328 Flagellar L-ring protein; Region: FlgH; pfam02107 555778005329 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 555778005330 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 555778005331 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 555778005332 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 555778005333 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 555778005334 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 555778005335 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 555778005336 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 555778005337 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 555778005338 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 555778005339 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 555778005340 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12634 555778005341 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 555778005342 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 555778005343 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 555778005344 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 555778005345 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 555778005346 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 555778005347 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 555778005348 Domain of unknown function DUF21; Region: DUF21; pfam01595 555778005349 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 555778005350 Transporter associated domain; Region: CorC_HlyC; smart01091 555778005351 DNA repair protein RadA; Provisional; Region: PRK11823 555778005352 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 555778005353 Walker A motif/ATP binding site; other site 555778005354 ATP binding site [chemical binding]; other site 555778005355 Walker B motif; other site 555778005356 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 555778005357 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 555778005358 HEAT repeats; Region: HEAT_2; pfam13646 555778005359 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 555778005360 electron transport complex RsxE subunit; Provisional; Region: PRK12405 555778005361 FMN-binding domain; Region: FMN_bind; cl01081 555778005362 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 555778005363 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 555778005364 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 555778005365 SLBB domain; Region: SLBB; pfam10531 555778005366 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 555778005367 electron transport complex, RnfABCDGE type, B subunit; Region: rnfB; TIGR01944 555778005368 Putative Fe-S cluster; Region: FeS; pfam04060 555778005369 4Fe-4S binding domain; Region: Fer4; pfam00037 555778005370 electron transport complex protein RsxA; Provisional; Region: PRK05151 555778005371 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 555778005372 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 555778005373 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 555778005374 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 555778005375 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 555778005376 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 555778005377 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 555778005378 hydrogenase 4 subunit F; Validated; Region: PRK06458 555778005379 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 555778005380 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 555778005381 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 555778005382 NADH dehydrogenase; Region: NADHdh; cl00469 555778005383 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 555778005384 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 555778005385 Walker A/P-loop; other site 555778005386 ATP binding site [chemical binding]; other site 555778005387 Q-loop/lid; other site 555778005388 ABC transporter signature motif; other site 555778005389 Walker B; other site 555778005390 D-loop; other site 555778005391 H-loop/switch region; other site 555778005392 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 555778005393 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 555778005394 dimer interface [polypeptide binding]; other site 555778005395 conserved gate region; other site 555778005396 putative PBP binding loops; other site 555778005397 ABC-ATPase subunit interface; other site 555778005398 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 555778005399 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 555778005400 dimer interface [polypeptide binding]; other site 555778005401 conserved gate region; other site 555778005402 putative PBP binding loops; other site 555778005403 ABC-ATPase subunit interface; other site 555778005404 PBP superfamily domain; Region: PBP_like_2; cl17296 555778005405 FMN-binding domain; Region: FMN_bind; pfam04205 555778005406 ApbE family; Region: ApbE; pfam02424 555778005407 putative mechanosensitive channel protein; Provisional; Region: PRK11465 555778005408 Mechanosensitive ion channel; Region: MS_channel; pfam00924 555778005409 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 555778005410 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 555778005411 GIY-YIG motif/motif A; other site 555778005412 active site 555778005413 catalytic site [active] 555778005414 putative DNA binding site [nucleotide binding]; other site 555778005415 metal binding site [ion binding]; metal-binding site 555778005416 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 555778005417 response regulator; Provisional; Region: PRK09483 555778005418 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 555778005419 active site 555778005420 phosphorylation site [posttranslational modification] 555778005421 intermolecular recognition site; other site 555778005422 dimerization interface [polypeptide binding]; other site 555778005423 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 555778005424 DNA binding residues [nucleotide binding] 555778005425 dimerization interface [polypeptide binding]; other site 555778005426 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 555778005427 putative active site [active] 555778005428 putative metal binding residues [ion binding]; other site 555778005429 signature motif; other site 555778005430 putative dimer interface [polypeptide binding]; other site 555778005431 putative phosphate binding site [ion binding]; other site 555778005432 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 555778005433 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 555778005434 dimer interface [polypeptide binding]; other site 555778005435 active site 555778005436 CoA binding pocket [chemical binding]; other site 555778005437 putative phosphate acyltransferase; Provisional; Region: PRK05331 555778005438 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 555778005439 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 555778005440 Maf-like protein; Region: Maf; pfam02545 555778005441 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 555778005442 active site 555778005443 dimer interface [polypeptide binding]; other site 555778005444 lysophospholipid transporter LplT; Provisional; Region: PRK11195 555778005445 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 555778005446 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 555778005447 active site 555778005448 phosphorylation site [posttranslational modification] 555778005449 intermolecular recognition site; other site 555778005450 dimerization interface [polypeptide binding]; other site 555778005451 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 555778005452 DNA binding site [nucleotide binding] 555778005453 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 555778005454 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 555778005455 ATP binding site [chemical binding]; other site 555778005456 Mg2+ binding site [ion binding]; other site 555778005457 G-X-G motif; other site 555778005458 manganese transport protein MntH; Reviewed; Region: PRK00701 555778005459 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 555778005460 Protein of unknown function (DUF3464); Region: DUF3464; pfam11947 555778005461 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 555778005462 GAF domain; Region: GAF; pfam01590 555778005463 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778005464 metal binding site [ion binding]; metal-binding site 555778005465 active site 555778005466 I-site; other site 555778005467 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 555778005468 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 555778005469 active site residue [active] 555778005470 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 555778005471 active site residue [active] 555778005472 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 555778005473 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 555778005474 G1 box; other site 555778005475 putative GEF interaction site [polypeptide binding]; other site 555778005476 GTP/Mg2+ binding site [chemical binding]; other site 555778005477 Switch I region; other site 555778005478 G2 box; other site 555778005479 G3 box; other site 555778005480 Switch II region; other site 555778005481 G4 box; other site 555778005482 G5 box; other site 555778005483 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 555778005484 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 555778005485 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 555778005486 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 555778005487 ThiS interaction site; other site 555778005488 putative active site [active] 555778005489 tetramer interface [polypeptide binding]; other site 555778005490 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 555778005491 YrhK-like protein; Region: YrhK; pfam14145 555778005492 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 555778005493 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 555778005494 active site 555778005495 catalytic site [active] 555778005496 substrate binding site [chemical binding]; other site 555778005497 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 555778005498 RNA/DNA hybrid binding site [nucleotide binding]; other site 555778005499 active site 555778005500 Methyltransferase domain; Region: Methyltransf_11; pfam08241 555778005501 MFS_1 like family; Region: MFS_1_like; pfam12832 555778005502 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 555778005503 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 555778005504 DNA-binding site [nucleotide binding]; DNA binding site 555778005505 RNA-binding motif; other site 555778005506 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 555778005507 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 555778005508 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 555778005509 Tetramer interface [polypeptide binding]; other site 555778005510 active site 555778005511 FMN-binding site [chemical binding]; other site 555778005512 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 555778005513 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 555778005514 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 555778005515 acyl-activating enzyme (AAE) consensus motif; other site 555778005516 acyl-activating enzyme (AAE) consensus motif; other site 555778005517 AMP binding site [chemical binding]; other site 555778005518 active site 555778005519 CoA binding site [chemical binding]; other site 555778005520 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 555778005521 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 555778005522 dimer interface [polypeptide binding]; other site 555778005523 active site 555778005524 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 555778005525 catalytic residues [active] 555778005526 substrate binding site [chemical binding]; other site 555778005527 Methyltransferase domain; Region: Methyltransf_23; pfam13489 555778005528 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 555778005529 S-adenosylmethionine binding site [chemical binding]; other site 555778005530 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 555778005531 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 555778005532 YGGT family; Region: YGGT; pfam02325 555778005533 YGGT family; Region: YGGT; pfam02325 555778005534 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 555778005535 pyrroline-5-carboxylate reductase; Region: PLN02688 555778005536 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 555778005537 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 555778005538 catalytic residue [active] 555778005539 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 555778005540 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 555778005541 Walker A motif; other site 555778005542 ATP binding site [chemical binding]; other site 555778005543 Walker B motif; other site 555778005544 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 555778005545 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 555778005546 Walker A motif; other site 555778005547 ATP binding site [chemical binding]; other site 555778005548 Walker B motif; other site 555778005549 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 555778005550 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 555778005551 Walker A motif; other site 555778005552 ATP binding site [chemical binding]; other site 555778005553 Walker B motif; other site 555778005554 Cytochrome c; Region: Cytochrom_C; cl11414 555778005555 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 555778005556 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 555778005557 Cytochrome c553 [Energy production and conversion]; Region: COG2863 555778005558 Cytochrome c; Region: Cytochrom_C; cl11414 555778005559 oxidative damage protection protein; Provisional; Region: PRK05408 555778005560 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 555778005561 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 555778005562 minor groove reading motif; other site 555778005563 helix-hairpin-helix signature motif; other site 555778005564 substrate binding pocket [chemical binding]; other site 555778005565 active site 555778005566 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 555778005567 DNA binding and oxoG recognition site [nucleotide binding] 555778005568 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 555778005569 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 555778005570 MoaE interaction surface [polypeptide binding]; other site 555778005571 MoeB interaction surface [polypeptide binding]; other site 555778005572 thiocarboxylated glycine; other site 555778005573 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 555778005574 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 555778005575 active site 555778005576 phosphate binding residues; other site 555778005577 catalytic residues [active] 555778005578 PilZ domain; Region: PilZ; pfam07238 555778005579 6-phosphofructokinase; Provisional; Region: PRK14072 555778005580 active site 555778005581 ADP/pyrophosphate binding site [chemical binding]; other site 555778005582 dimerization interface [polypeptide binding]; other site 555778005583 allosteric effector site; other site 555778005584 fructose-1,6-bisphosphate binding site; other site 555778005585 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 555778005586 AMP binding site [chemical binding]; other site 555778005587 metal binding site [ion binding]; metal-binding site 555778005588 active site 555778005589 SCP-2 sterol transfer family; Region: SCP2; cl01225 555778005590 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 555778005591 CoA binding domain; Region: CoA_binding_2; pfam13380 555778005592 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 555778005593 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 555778005594 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 555778005595 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 555778005596 Coenzyme A binding pocket [chemical binding]; other site 555778005597 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 555778005598 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 555778005599 putative active site [active] 555778005600 Zn binding site [ion binding]; other site 555778005601 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 555778005602 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 555778005603 putative RNA binding site [nucleotide binding]; other site 555778005604 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 555778005605 homopentamer interface [polypeptide binding]; other site 555778005606 active site 555778005607 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 555778005608 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 555778005609 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 555778005610 dimerization interface [polypeptide binding]; other site 555778005611 active site 555778005612 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 555778005613 Lumazine binding domain; Region: Lum_binding; pfam00677 555778005614 Lumazine binding domain; Region: Lum_binding; pfam00677 555778005615 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 555778005616 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 555778005617 catalytic motif [active] 555778005618 Zn binding site [ion binding]; other site 555778005619 RibD C-terminal domain; Region: RibD_C; cl17279 555778005620 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 555778005621 ATP cone domain; Region: ATP-cone; pfam03477 555778005622 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 555778005623 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 555778005624 dimer interface [polypeptide binding]; other site 555778005625 active site 555778005626 glycine-pyridoxal phosphate binding site [chemical binding]; other site 555778005627 folate binding site [chemical binding]; other site 555778005628 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 555778005629 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 555778005630 ligand binding site [chemical binding]; other site 555778005631 flexible hinge region; other site 555778005632 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 555778005633 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 555778005634 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 555778005635 metal-binding site [ion binding] 555778005636 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 555778005637 Soluble P-type ATPase [General function prediction only]; Region: COG4087 555778005638 FixH; Region: FixH; pfam05751 555778005639 YtkA-like; Region: YtkA; pfam13115 555778005640 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 555778005641 4Fe-4S binding domain; Region: Fer4_5; pfam12801 555778005642 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 555778005643 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 555778005644 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 555778005645 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 555778005646 Cytochrome c; Region: Cytochrom_C; pfam00034 555778005647 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 555778005648 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 555778005649 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 555778005650 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 555778005651 Low-spin heme binding site [chemical binding]; other site 555778005652 Putative water exit pathway; other site 555778005653 Binuclear center (active site) [active] 555778005654 Putative proton exit pathway; other site 555778005655 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 555778005656 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 555778005657 S-adenosylmethionine binding site [chemical binding]; other site 555778005658 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 555778005659 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 555778005660 UGMP family protein; Validated; Region: PRK09604 555778005661 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 555778005662 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 555778005663 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 555778005664 catalytic residues [active] 555778005665 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 555778005666 active site 555778005667 ATP binding site [chemical binding]; other site 555778005668 substrate binding site [chemical binding]; other site 555778005669 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 555778005670 AAA domain; Region: AAA_26; pfam13500 555778005671 SnoaL-like domain; Region: SnoaL_2; pfam12680 555778005672 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 555778005673 NAD(P) binding site [chemical binding]; other site 555778005674 active site 555778005675 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 555778005676 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 555778005677 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 555778005678 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 555778005679 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 555778005680 S-adenosylmethionine binding site [chemical binding]; other site 555778005681 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 555778005682 MFS/sugar transport protein; Region: MFS_2; pfam13347 555778005683 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 555778005684 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 555778005685 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 555778005686 putative inner membrane peptidase; Provisional; Region: PRK11778 555778005687 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 555778005688 tandem repeat interface [polypeptide binding]; other site 555778005689 oligomer interface [polypeptide binding]; other site 555778005690 active site residues [active] 555778005691 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 555778005692 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 555778005693 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 555778005694 ketol-acid reductoisomerase; Provisional; Region: PRK05479 555778005695 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 555778005696 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 555778005697 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 555778005698 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 555778005699 putative valine binding site [chemical binding]; other site 555778005700 dimer interface [polypeptide binding]; other site 555778005701 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 555778005702 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 555778005703 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 555778005704 PYR/PP interface [polypeptide binding]; other site 555778005705 dimer interface [polypeptide binding]; other site 555778005706 TPP binding site [chemical binding]; other site 555778005707 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 555778005708 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 555778005709 TPP-binding site [chemical binding]; other site 555778005710 dimer interface [polypeptide binding]; other site 555778005711 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 555778005712 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 555778005713 CPxP motif; other site 555778005714 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 555778005715 active site residue [active] 555778005716 Cytochrome c; Region: Cytochrom_C; pfam00034 555778005717 Cytochrome c [Energy production and conversion]; Region: COG3258 555778005718 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 555778005719 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 555778005720 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 555778005721 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 555778005722 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 555778005723 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 555778005724 DXD motif; other site 555778005725 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 555778005726 MPT binding site; other site 555778005727 trimer interface [polypeptide binding]; other site 555778005728 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 555778005729 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 555778005730 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 555778005731 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 555778005732 FeS/SAM binding site; other site 555778005733 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 555778005734 Asparaginase; Region: Asparaginase; pfam00710 555778005735 active site 555778005736 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 555778005737 active site 555778005738 metal binding site [ion binding]; metal-binding site 555778005739 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 555778005740 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 555778005741 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 555778005742 DNA polymerase III subunit delta'; Validated; Region: PRK08485 555778005743 thymidylate kinase; Validated; Region: tmk; PRK00698 555778005744 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 555778005745 TMP-binding site; other site 555778005746 ATP-binding site [chemical binding]; other site 555778005747 YceG-like family; Region: YceG; pfam02618 555778005748 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 555778005749 dimerization interface [polypeptide binding]; other site 555778005750 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 555778005751 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 555778005752 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778005753 catalytic residue [active] 555778005754 hypothetical protein; Validated; Region: PRK09070 555778005755 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 555778005756 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 555778005757 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 555778005758 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 555778005759 dimer interface [polypeptide binding]; other site 555778005760 active site 555778005761 acyl carrier protein; Provisional; Region: acpP; PRK00982 555778005762 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 555778005763 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 555778005764 NAD(P) binding site [chemical binding]; other site 555778005765 homotetramer interface [polypeptide binding]; other site 555778005766 homodimer interface [polypeptide binding]; other site 555778005767 active site 555778005768 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 555778005769 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 555778005770 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 555778005771 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 555778005772 putative ADP-binding pocket [chemical binding]; other site 555778005773 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 555778005774 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 555778005775 ATP binding site [chemical binding]; other site 555778005776 Mg++ binding site [ion binding]; other site 555778005777 motif III; other site 555778005778 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 555778005779 nucleotide binding region [chemical binding]; other site 555778005780 ATP-binding site [chemical binding]; other site 555778005781 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 555778005782 putative RNA binding site [nucleotide binding]; other site 555778005783 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 555778005784 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 555778005785 DNA binding site [nucleotide binding] 555778005786 active site 555778005787 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 555778005788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 555778005789 ATP-grasp domain; Region: ATP-grasp; pfam02222 555778005790 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 555778005791 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 555778005792 Yqey-like protein; Region: YqeY; pfam09424 555778005793 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 555778005794 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 555778005795 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 555778005796 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 555778005797 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 555778005798 substrate binding site [chemical binding]; other site 555778005799 active site 555778005800 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 555778005801 Transglycosylase; Region: Transgly; pfam00912 555778005802 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 555778005803 Competence protein A; Region: Competence_A; pfam11104 555778005804 Cell division protein FtsA; Region: FtsA; pfam14450 555778005805 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 555778005806 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 555778005807 Pilus assembly protein, PilO; Region: PilO; pfam04350 555778005808 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 555778005809 Pilus assembly protein, PilP; Region: PilP; pfam04351 555778005810 AMIN domain; Region: AMIN; pfam11741 555778005811 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 555778005812 Secretin and TonB N terminus short domain; Region: STN; smart00965 555778005813 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 555778005814 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 555778005815 shikimate kinase; Reviewed; Region: aroK; PRK00131 555778005816 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 555778005817 ADP binding site [chemical binding]; other site 555778005818 magnesium binding site [ion binding]; other site 555778005819 putative shikimate binding site; other site 555778005820 Transposase domain (DUF772); Region: DUF772; pfam05598 555778005821 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 555778005822 DDE superfamily endonuclease; Region: DDE_4; cl17710 555778005823 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 555778005824 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 555778005825 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 555778005826 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 555778005827 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 555778005828 DNA binding residues [nucleotide binding] 555778005829 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 555778005830 ATP-grasp domain; Region: ATP-grasp_4; cl17255 555778005831 phosphoserine aminotransferase; Provisional; Region: PRK12462 555778005832 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 555778005833 catalytic residue [active] 555778005834 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 555778005835 nudix motif; other site 555778005836 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 555778005837 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 555778005838 Ligand Binding Site [chemical binding]; other site 555778005839 putative lysogenization regulator; Reviewed; Region: PRK00218 555778005840 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 555778005841 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 555778005842 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 555778005843 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 555778005844 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 555778005845 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 555778005846 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 555778005847 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 555778005848 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 555778005849 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 555778005850 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 555778005851 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 555778005852 4Fe-4S binding domain; Region: Fer4; pfam00037 555778005853 4Fe-4S binding domain; Region: Fer4; pfam00037 555778005854 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 555778005855 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 555778005856 NADH dehydrogenase subunit G; Validated; Region: PRK09129 555778005857 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 555778005858 catalytic loop [active] 555778005859 iron binding site [ion binding]; other site 555778005860 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 555778005861 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 555778005862 molybdopterin cofactor binding site; other site 555778005863 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 555778005864 SLBB domain; Region: SLBB; pfam10531 555778005865 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 555778005866 NADH dehydrogenase subunit E; Validated; Region: PRK07539 555778005867 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 555778005868 putative dimer interface [polypeptide binding]; other site 555778005869 [2Fe-2S] cluster binding site [ion binding]; other site 555778005870 NADH dehydrogenase subunit D; Validated; Region: PRK06075 555778005871 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 555778005872 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 555778005873 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 555778005874 NADH dehydrogenase subunit B; Validated; Region: PRK06411 555778005875 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 555778005876 protein translocase, SecG subunit; Region: secG; TIGR00810 555778005877 triosephosphate isomerase; Provisional; Region: PRK14567 555778005878 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 555778005879 substrate binding site [chemical binding]; other site 555778005880 dimer interface [polypeptide binding]; other site 555778005881 catalytic triad [active] 555778005882 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 555778005883 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 555778005884 active site 555778005885 substrate binding site [chemical binding]; other site 555778005886 metal binding site [ion binding]; metal-binding site 555778005887 Cytochrome c; Region: Cytochrom_C; cl11414 555778005888 Cytochrome c; Region: Cytochrom_C; cl11414 555778005889 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 555778005890 dihydropteroate synthase; Region: DHPS; TIGR01496 555778005891 substrate binding pocket [chemical binding]; other site 555778005892 dimer interface [polypeptide binding]; other site 555778005893 inhibitor binding site; inhibition site 555778005894 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 555778005895 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 555778005896 Walker A motif; other site 555778005897 ATP binding site [chemical binding]; other site 555778005898 Walker B motif; other site 555778005899 arginine finger; other site 555778005900 Peptidase family M41; Region: Peptidase_M41; pfam01434 555778005901 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 555778005902 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 555778005903 S-adenosylmethionine binding site [chemical binding]; other site 555778005904 Protein of unknown function (DUF461); Region: DUF461; pfam04314 555778005905 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 555778005906 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 555778005907 Cu(I) binding site [ion binding]; other site 555778005908 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 555778005909 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 555778005910 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 555778005911 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 555778005912 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 555778005913 TrkA-N domain; Region: TrkA_N; pfam02254 555778005914 TrkA-C domain; Region: TrkA_C; pfam02080 555778005915 tropinone reductase; Provisional; Region: PRK09242 555778005916 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 555778005917 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 555778005918 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 555778005919 ATP binding site [chemical binding]; other site 555778005920 putative Mg++ binding site [ion binding]; other site 555778005921 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 555778005922 nucleotide binding region [chemical binding]; other site 555778005923 ATP-binding site [chemical binding]; other site 555778005924 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 555778005925 RDD family; Region: RDD; pfam06271 555778005926 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 555778005927 AAA domain; Region: AAA_30; pfam13604 555778005928 Family description; Region: UvrD_C_2; pfam13538 555778005929 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 555778005930 Family description; Region: UvrD_C_2; pfam13538 555778005931 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 555778005932 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 555778005933 putative addiction module antidote; Region: doc_partner; TIGR02609 555778005934 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 555778005935 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 555778005936 eyelet of channel; other site 555778005937 trimer interface [polypeptide binding]; other site 555778005938 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 555778005939 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 555778005940 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 555778005941 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 555778005942 CoA-ligase; Region: Ligase_CoA; pfam00549 555778005943 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 555778005944 CoA binding domain; Region: CoA_binding; smart00881 555778005945 CoA-ligase; Region: Ligase_CoA; pfam00549 555778005946 NAD synthetase; Provisional; Region: PRK13981 555778005947 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 555778005948 multimer interface [polypeptide binding]; other site 555778005949 active site 555778005950 catalytic triad [active] 555778005951 protein interface 1 [polypeptide binding]; other site 555778005952 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 555778005953 homodimer interface [polypeptide binding]; other site 555778005954 NAD binding pocket [chemical binding]; other site 555778005955 ATP binding pocket [chemical binding]; other site 555778005956 Mg binding site [ion binding]; other site 555778005957 active-site loop [active] 555778005958 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 555778005959 active site 1 [active] 555778005960 dimer interface [polypeptide binding]; other site 555778005961 hexamer interface [polypeptide binding]; other site 555778005962 active site 2 [active] 555778005963 DNA-binding response regulator CreB; Provisional; Region: PRK11083 555778005964 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 555778005965 active site 555778005966 phosphorylation site [posttranslational modification] 555778005967 intermolecular recognition site; other site 555778005968 dimerization interface [polypeptide binding]; other site 555778005969 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 555778005970 DNA binding site [nucleotide binding] 555778005971 sensory histidine kinase CreC; Provisional; Region: PRK11100 555778005972 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 555778005973 dimerization interface [polypeptide binding]; other site 555778005974 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 555778005975 dimer interface [polypeptide binding]; other site 555778005976 phosphorylation site [posttranslational modification] 555778005977 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 555778005978 ATP binding site [chemical binding]; other site 555778005979 Mg2+ binding site [ion binding]; other site 555778005980 G-X-G motif; other site 555778005981 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 555778005982 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 555778005983 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 555778005984 metal ion-dependent adhesion site (MIDAS); other site 555778005985 exosortase K; Region: exosort_XrtK; TIGR04287 555778005986 hypothetical protein; Provisional; Region: PRK08999 555778005987 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 555778005988 active site 555778005989 8-oxo-dGMP binding site [chemical binding]; other site 555778005990 nudix motif; other site 555778005991 metal binding site [ion binding]; metal-binding site 555778005992 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 555778005993 active site 555778005994 thiamine phosphate binding site [chemical binding]; other site 555778005995 pyrophosphate binding site [ion binding]; other site 555778005996 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 555778005997 heterotetramer interface [polypeptide binding]; other site 555778005998 active site pocket [active] 555778005999 cleavage site 555778006000 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 555778006001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 555778006002 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 555778006003 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 555778006004 SEC-C motif; Region: SEC-C; pfam02810 555778006005 Protein of unknown function (DUF721); Region: DUF721; pfam05258 555778006006 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 555778006007 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 555778006008 heat shock protein 90; Provisional; Region: PRK05218 555778006009 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 555778006010 ATP binding site [chemical binding]; other site 555778006011 Mg2+ binding site [ion binding]; other site 555778006012 G-X-G motif; other site 555778006013 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 555778006014 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 555778006015 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 555778006016 RimM N-terminal domain; Region: RimM; pfam01782 555778006017 PRC-barrel domain; Region: PRC; pfam05239 555778006018 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 555778006019 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 555778006020 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 555778006021 GDP-binding site [chemical binding]; other site 555778006022 ACT binding site; other site 555778006023 IMP binding site; other site 555778006024 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 555778006025 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 555778006026 dimer interface [polypeptide binding]; other site 555778006027 motif 1; other site 555778006028 active site 555778006029 motif 2; other site 555778006030 motif 3; other site 555778006031 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 555778006032 HflC protein; Region: hflC; TIGR01932 555778006033 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 555778006034 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 555778006035 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 555778006036 HflK protein; Region: hflK; TIGR01933 555778006037 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 555778006038 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 555778006039 HflX GTPase family; Region: HflX; cd01878 555778006040 G1 box; other site 555778006041 GTP/Mg2+ binding site [chemical binding]; other site 555778006042 Switch I region; other site 555778006043 G2 box; other site 555778006044 G3 box; other site 555778006045 Switch II region; other site 555778006046 G4 box; other site 555778006047 G5 box; other site 555778006048 bacterial Hfq-like; Region: Hfq; cd01716 555778006049 hexamer interface [polypeptide binding]; other site 555778006050 Sm1 motif; other site 555778006051 RNA binding site [nucleotide binding]; other site 555778006052 Sm2 motif; other site 555778006053 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 555778006054 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 555778006055 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 555778006056 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 555778006057 Mg2+ binding site [ion binding]; other site 555778006058 G-X-G motif; other site 555778006059 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 555778006060 ATP binding site [chemical binding]; other site 555778006061 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 555778006062 AMIN domain; Region: AMIN; pfam11741 555778006063 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 555778006064 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 555778006065 active site 555778006066 metal binding site [ion binding]; metal-binding site 555778006067 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 555778006068 putative carbohydrate kinase; Provisional; Region: PRK10565 555778006069 Uncharacterized conserved protein [Function unknown]; Region: COG0062 555778006070 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 555778006071 putative substrate binding site [chemical binding]; other site 555778006072 putative ATP binding site [chemical binding]; other site 555778006073 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 555778006074 active site 555778006075 HIGH motif; other site 555778006076 dimer interface [polypeptide binding]; other site 555778006077 KMSKS motif; other site 555778006078 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 555778006079 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 555778006080 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 555778006081 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 555778006082 DNA binding site [nucleotide binding] 555778006083 catalytic residue [active] 555778006084 H2TH interface [polypeptide binding]; other site 555778006085 putative catalytic residues [active] 555778006086 turnover-facilitating residue; other site 555778006087 intercalation triad [nucleotide binding]; other site 555778006088 8OG recognition residue [nucleotide binding]; other site 555778006089 putative reading head residues; other site 555778006090 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 555778006091 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 555778006092 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 555778006093 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 555778006094 active site 555778006095 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 555778006096 Clp amino terminal domain; Region: Clp_N; pfam02861 555778006097 Clp amino terminal domain; Region: Clp_N; pfam02861 555778006098 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 555778006099 Walker A motif; other site 555778006100 ATP binding site [chemical binding]; other site 555778006101 Walker B motif; other site 555778006102 arginine finger; other site 555778006103 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 555778006104 Walker A motif; other site 555778006105 ATP binding site [chemical binding]; other site 555778006106 Walker B motif; other site 555778006107 arginine finger; other site 555778006108 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 555778006109 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 555778006110 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 555778006111 putative active site [active] 555778006112 putative metal binding site [ion binding]; other site 555778006113 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 555778006114 active site 555778006115 catalytic residues [active] 555778006116 metal binding site [ion binding]; metal-binding site 555778006117 ACT domain; Region: ACT_6; pfam13740 555778006118 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 555778006119 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 555778006120 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 555778006121 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 555778006122 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 555778006123 RNA binding surface [nucleotide binding]; other site 555778006124 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 555778006125 active site 555778006126 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 555778006127 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 555778006128 metabolite-proton symporter; Region: 2A0106; TIGR00883 555778006129 putative substrate translocation pore; other site 555778006130 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 555778006131 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 555778006132 dimerization domain [polypeptide binding]; other site 555778006133 dimer interface [polypeptide binding]; other site 555778006134 catalytic residues [active] 555778006135 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 555778006136 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 555778006137 active site 555778006138 DNA binding site [nucleotide binding] 555778006139 Int/Topo IB signature motif; other site 555778006140 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 555778006141 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 555778006142 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 555778006143 Walker A motif; other site 555778006144 ATP binding site [chemical binding]; other site 555778006145 Walker B motif; other site 555778006146 arginine finger; other site 555778006147 acetyl-CoA synthetase; Provisional; Region: PRK00174 555778006148 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 555778006149 active site 555778006150 CoA binding site [chemical binding]; other site 555778006151 acyl-activating enzyme (AAE) consensus motif; other site 555778006152 AMP binding site [chemical binding]; other site 555778006153 acetate binding site [chemical binding]; other site 555778006154 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 555778006155 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 555778006156 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 555778006157 23S rRNA interface [nucleotide binding]; other site 555778006158 L3 interface [polypeptide binding]; other site 555778006159 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 555778006160 Cysteine-rich domain; Region: CCG; pfam02754 555778006161 Cysteine-rich domain; Region: CCG; pfam02754 555778006162 OsmC-like protein; Region: OsmC; cl00767 555778006163 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 555778006164 active site 555778006165 ribulose/triose binding site [chemical binding]; other site 555778006166 phosphate binding site [ion binding]; other site 555778006167 substrate (anthranilate) binding pocket [chemical binding]; other site 555778006168 product (indole) binding pocket [chemical binding]; other site 555778006169 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 555778006170 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 555778006171 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 555778006172 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 555778006173 dimer interface [polypeptide binding]; other site 555778006174 motif 1; other site 555778006175 active site 555778006176 motif 2; other site 555778006177 motif 3; other site 555778006178 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 555778006179 DALR anticodon binding domain; Region: DALR_1; pfam05746 555778006180 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 555778006181 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 555778006182 putative acyl-acceptor binding pocket; other site 555778006183 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 555778006184 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 555778006185 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 555778006186 pseudouridine synthase; Region: TIGR00093 555778006187 probable active site [active] 555778006188 5'-3' exonuclease; Region: 53EXOc; smart00475 555778006189 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 555778006190 active site 555778006191 metal binding site 1 [ion binding]; metal-binding site 555778006192 putative 5' ssDNA interaction site; other site 555778006193 metal binding site 3; metal-binding site 555778006194 metal binding site 2 [ion binding]; metal-binding site 555778006195 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 555778006196 putative DNA binding site [nucleotide binding]; other site 555778006197 putative metal binding site [ion binding]; other site 555778006198 Malic enzyme, N-terminal domain; Region: malic; pfam00390 555778006199 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 555778006200 putative NAD(P) binding site [chemical binding]; other site 555778006201 Chorismate mutase type II; Region: CM_2; smart00830 555778006202 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 555778006203 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 555778006204 Response regulator receiver domain; Region: Response_reg; pfam00072 555778006205 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 555778006206 active site 555778006207 phosphorylation site [posttranslational modification] 555778006208 intermolecular recognition site; other site 555778006209 dimerization interface [polypeptide binding]; other site 555778006210 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778006211 active site 555778006212 I-site; other site 555778006213 metal binding site [ion binding]; metal-binding site 555778006214 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 555778006215 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 555778006216 GAF domain; Region: GAF; pfam01590 555778006217 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 555778006218 PAS domain; Region: PAS_9; pfam13426 555778006219 putative active site [active] 555778006220 heme pocket [chemical binding]; other site 555778006221 PAS fold; Region: PAS_4; pfam08448 555778006222 PAS fold; Region: PAS_3; pfam08447 555778006223 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 555778006224 putative active site [active] 555778006225 heme pocket [chemical binding]; other site 555778006226 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 555778006227 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 555778006228 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 555778006229 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 555778006230 dimer interface [polypeptide binding]; other site 555778006231 phosphorylation site [posttranslational modification] 555778006232 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 555778006233 ATP binding site [chemical binding]; other site 555778006234 Mg2+ binding site [ion binding]; other site 555778006235 G-X-G motif; other site 555778006236 Response regulator receiver domain; Region: Response_reg; pfam00072 555778006237 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 555778006238 active site 555778006239 phosphorylation site [posttranslational modification] 555778006240 intermolecular recognition site; other site 555778006241 dimerization interface [polypeptide binding]; other site 555778006242 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 555778006243 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 555778006244 ligand binding site [chemical binding]; other site 555778006245 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 555778006246 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 555778006247 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 555778006248 catalytic residue [active] 555778006249 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 555778006250 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 555778006251 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 555778006252 ATP binding site [chemical binding]; other site 555778006253 Mg2+ binding site [ion binding]; other site 555778006254 G-X-G motif; other site 555778006255 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 555778006256 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 555778006257 active site 555778006258 phosphorylation site [posttranslational modification] 555778006259 intermolecular recognition site; other site 555778006260 dimerization interface [polypeptide binding]; other site 555778006261 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 555778006262 Walker A motif; other site 555778006263 ATP binding site [chemical binding]; other site 555778006264 Walker B motif; other site 555778006265 arginine finger; other site 555778006266 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 555778006267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 555778006268 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 555778006269 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 555778006270 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 555778006271 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 555778006272 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 555778006273 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 555778006274 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 555778006275 putative acyl-acceptor binding pocket; other site 555778006276 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 555778006277 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 555778006278 putative acyl-acceptor binding pocket; other site 555778006279 Cation transport protein; Region: TrkH; cl17365 555778006280 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 555778006281 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 555778006282 TrkA-N domain; Region: TrkA_N; pfam02254 555778006283 TrkA-C domain; Region: TrkA_C; pfam02080 555778006284 TrkA-N domain; Region: TrkA_N; pfam02254 555778006285 TrkA-C domain; Region: TrkA_C; pfam02080 555778006286 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 555778006287 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 555778006288 active site 555778006289 phosphorylation site [posttranslational modification] 555778006290 intermolecular recognition site; other site 555778006291 dimerization interface [polypeptide binding]; other site 555778006292 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 555778006293 Walker A motif; other site 555778006294 ATP binding site [chemical binding]; other site 555778006295 Walker B motif; other site 555778006296 arginine finger; other site 555778006297 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 555778006298 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 555778006299 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 555778006300 dimerization interface [polypeptide binding]; other site 555778006301 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 555778006302 dimer interface [polypeptide binding]; other site 555778006303 phosphorylation site [posttranslational modification] 555778006304 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 555778006305 ATP binding site [chemical binding]; other site 555778006306 Mg2+ binding site [ion binding]; other site 555778006307 G-X-G motif; other site 555778006308 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 555778006309 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 555778006310 16S rRNA methyltransferase B; Provisional; Region: PRK10901 555778006311 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 555778006312 S-adenosylmethionine binding site [chemical binding]; other site 555778006313 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 555778006314 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 555778006315 putative active site [active] 555778006316 substrate binding site [chemical binding]; other site 555778006317 putative cosubstrate binding site; other site 555778006318 catalytic site [active] 555778006319 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 555778006320 substrate binding site [chemical binding]; other site 555778006321 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 555778006322 active site 555778006323 catalytic residues [active] 555778006324 metal binding site [ion binding]; metal-binding site 555778006325 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 555778006326 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 555778006327 DNA protecting protein DprA; Region: dprA; TIGR00732 555778006328 Protein of unknown function (DUF494); Region: DUF494; pfam04361 555778006329 DNA topoisomerase I; Provisional; Region: PRK08780 555778006330 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 555778006331 active site 555778006332 interdomain interaction site; other site 555778006333 putative metal-binding site [ion binding]; other site 555778006334 nucleotide binding site [chemical binding]; other site 555778006335 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 555778006336 domain I; other site 555778006337 DNA binding groove [nucleotide binding] 555778006338 phosphate binding site [ion binding]; other site 555778006339 domain II; other site 555778006340 domain III; other site 555778006341 nucleotide binding site [chemical binding]; other site 555778006342 catalytic site [active] 555778006343 domain IV; other site 555778006344 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 555778006345 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 555778006346 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 555778006347 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 555778006348 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 555778006349 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 555778006350 Staphylococcal nuclease homologues; Region: SNc; smart00318 555778006351 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 555778006352 Catalytic site; other site 555778006353 Src homology 2 (SH2) domain; Region: SH2; cl15255 555778006354 phosphotyrosine binding pocket [polypeptide binding]; other site 555778006355 hydrophobic binding pocket [polypeptide binding]; other site 555778006356 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 555778006357 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 555778006358 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 555778006359 active site 555778006360 biotin synthase; Provisional; Region: PRK15108 555778006361 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 555778006362 FeS/SAM binding site; other site 555778006363 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 555778006364 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 555778006365 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 555778006366 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 555778006367 active site 555778006368 phosphorylation site [posttranslational modification] 555778006369 intermolecular recognition site; other site 555778006370 dimerization interface [polypeptide binding]; other site 555778006371 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 555778006372 Walker A motif; other site 555778006373 ATP binding site [chemical binding]; other site 555778006374 Walker B motif; other site 555778006375 arginine finger; other site 555778006376 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 555778006377 HAMP domain; Region: HAMP; pfam00672 555778006378 dimerization interface [polypeptide binding]; other site 555778006379 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 555778006380 dimer interface [polypeptide binding]; other site 555778006381 phosphorylation site [posttranslational modification] 555778006382 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 555778006383 ATP binding site [chemical binding]; other site 555778006384 Mg2+ binding site [ion binding]; other site 555778006385 G-X-G motif; other site 555778006386 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 555778006387 non-specific DNA binding site [nucleotide binding]; other site 555778006388 salt bridge; other site 555778006389 sequence-specific DNA binding site [nucleotide binding]; other site 555778006390 Phage-related protein [Function unknown]; Region: COG4679 555778006391 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 555778006392 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cd02259 555778006393 putative active site [active] 555778006394 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 555778006395 RHS Repeat; Region: RHS_repeat; pfam05593 555778006396 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 555778006397 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 555778006398 RHS Repeat; Region: RHS_repeat; pfam05593 555778006399 RHS Repeat; Region: RHS_repeat; pfam05593 555778006400 RHS Repeat; Region: RHS_repeat; pfam05593 555778006401 RHS Repeat; Region: RHS_repeat; pfam05593 555778006402 RHS Repeat; Region: RHS_repeat; pfam05593 555778006403 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 555778006404 anthranilate synthase component I; Provisional; Region: PRK13565 555778006405 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 555778006406 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 555778006407 phosphoglycolate phosphatase; Provisional; Region: PRK13222 555778006408 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 555778006409 motif II; other site 555778006410 phosphoglycolate phosphatase; Provisional; Region: PRK13222 555778006411 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 555778006412 motif II; other site 555778006413 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 555778006414 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 555778006415 substrate binding site [chemical binding]; other site 555778006416 hexamer interface [polypeptide binding]; other site 555778006417 metal binding site [ion binding]; metal-binding site 555778006418 Sporulation related domain; Region: SPOR; pfam05036 555778006419 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 555778006420 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 555778006421 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 555778006422 active site 555778006423 HIGH motif; other site 555778006424 nucleotide binding site [chemical binding]; other site 555778006425 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 555778006426 KMSK motif region; other site 555778006427 tRNA binding surface [nucleotide binding]; other site 555778006428 DALR anticodon binding domain; Region: DALR_1; smart00836 555778006429 anticodon binding site; other site 555778006430 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 555778006431 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 555778006432 Autotransporter beta-domain; Region: Autotransporter; smart00869 555778006433 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 555778006434 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 555778006435 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 555778006436 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 555778006437 homodecamer interface [polypeptide binding]; other site 555778006438 GTP cyclohydrolase I; Provisional; Region: PLN03044 555778006439 active site 555778006440 putative catalytic site residues [active] 555778006441 zinc binding site [ion binding]; other site 555778006442 GTP-CH-I/GFRP interaction surface; other site 555778006443 dihydromonapterin reductase; Provisional; Region: PRK06483 555778006444 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 555778006445 NAD(P) binding site [chemical binding]; other site 555778006446 active site 555778006447 ABC-2 type transporter; Region: ABC2_membrane; cl17235 555778006448 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 555778006449 nodulation ABC transporter NodI; Provisional; Region: PRK13537 555778006450 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 555778006451 Walker A/P-loop; other site 555778006452 ATP binding site [chemical binding]; other site 555778006453 Q-loop/lid; other site 555778006454 ABC transporter signature motif; other site 555778006455 Walker B; other site 555778006456 D-loop; other site 555778006457 H-loop/switch region; other site 555778006458 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 555778006459 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 555778006460 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 555778006461 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 555778006462 putative acyl-acceptor binding pocket; other site 555778006463 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 555778006464 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 555778006465 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 555778006466 O-Antigen ligase; Region: Wzy_C; pfam04932 555778006467 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 555778006468 putative metal binding site; other site 555778006469 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 555778006470 putative active site [active] 555778006471 putative metal binding site [ion binding]; other site 555778006472 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 555778006473 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 555778006474 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 555778006475 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 555778006476 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 555778006477 putative ADP-binding pocket [chemical binding]; other site 555778006478 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 555778006479 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 555778006480 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 555778006481 Zinc-finger domain; Region: zf-CHCC; cl01821 555778006482 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 555778006483 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 555778006484 homodimer interface [polypeptide binding]; other site 555778006485 substrate-cofactor binding pocket; other site 555778006486 catalytic residue [active] 555778006487 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 555778006488 thiS-thiF/thiG interaction site; other site 555778006489 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 555778006490 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 555778006491 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 555778006492 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 555778006493 active site 555778006494 HIGH motif; other site 555778006495 dimer interface [polypeptide binding]; other site 555778006496 KMSKS motif; other site 555778006497 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 555778006498 RNA binding surface [nucleotide binding]; other site 555778006499 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 555778006500 Peptidase family M23; Region: Peptidase_M23; pfam01551 555778006501 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 555778006502 citrate synthase; Provisional; Region: PRK14036 555778006503 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 555778006504 oxalacetate binding site [chemical binding]; other site 555778006505 citrylCoA binding site [chemical binding]; other site 555778006506 coenzyme A binding site [chemical binding]; other site 555778006507 catalytic triad [active] 555778006508 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 555778006509 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 555778006510 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 555778006511 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 555778006512 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 555778006513 Cl- selectivity filter; other site 555778006514 Cl- binding residues [ion binding]; other site 555778006515 pore gating glutamate residue; other site 555778006516 dimer interface [polypeptide binding]; other site 555778006517 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 555778006518 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 555778006519 catalytic residues [active] 555778006520 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 555778006521 active site 555778006522 PII uridylyl-transferase; Provisional; Region: PRK03059 555778006523 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 555778006524 metal binding triad; other site 555778006525 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 555778006526 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 555778006527 Zn2+ binding site [ion binding]; other site 555778006528 Mg2+ binding site [ion binding]; other site 555778006529 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 555778006530 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 555778006531 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 555778006532 active site 555778006533 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 555778006534 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 555778006535 active site 555778006536 phosphorylation site [posttranslational modification] 555778006537 intermolecular recognition site; other site 555778006538 dimerization interface [polypeptide binding]; other site 555778006539 LytTr DNA-binding domain; Region: LytTR; pfam04397 555778006540 Histidine kinase; Region: His_kinase; pfam06580 555778006541 argininosuccinate lyase; Provisional; Region: PRK00855 555778006542 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 555778006543 active sites [active] 555778006544 tetramer interface [polypeptide binding]; other site 555778006545 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 555778006546 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 555778006547 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 555778006548 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 555778006549 ligand binding site [chemical binding]; other site 555778006550 active site 555778006551 UGI interface [polypeptide binding]; other site 555778006552 catalytic site [active] 555778006553 hypothetical protein; Reviewed; Region: PRK00024 555778006554 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 555778006555 MPN+ (JAMM) motif; other site 555778006556 Zinc-binding site [ion binding]; other site 555778006557 tonB-system energizer ExbB, group 2; Region: exbB2; TIGR02805 555778006558 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 555778006559 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 555778006560 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 555778006561 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 555778006562 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 555778006563 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 555778006564 domain interfaces; other site 555778006565 active site 555778006566 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 555778006567 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 555778006568 active site 555778006569 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 555778006570 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 555778006571 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 555778006572 HemY protein N-terminus; Region: HemY_N; pfam07219 555778006573 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778006574 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778006575 metal binding site [ion binding]; metal-binding site 555778006576 active site 555778006577 I-site; other site 555778006578 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 555778006579 putative catalytic site [active] 555778006580 putative metal binding site [ion binding]; other site 555778006581 putative phosphate binding site [ion binding]; other site 555778006582 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 555778006583 catalytic residues [active] 555778006584 hinge region; other site 555778006585 alpha helical domain; other site 555778006586 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 555778006587 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 555778006588 ResB-like family; Region: ResB; pfam05140 555778006589 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 555778006590 Cytochrome c553 [Energy production and conversion]; Region: COG2863 555778006591 Cytochrome c; Region: Cytochrom_C; cl11414 555778006592 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 555778006593 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 555778006594 G1 box; other site 555778006595 GTP/Mg2+ binding site [chemical binding]; other site 555778006596 Switch I region; other site 555778006597 G2 box; other site 555778006598 G3 box; other site 555778006599 Switch II region; other site 555778006600 G4 box; other site 555778006601 G5 box; other site 555778006602 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 555778006603 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778006604 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778006605 metal binding site [ion binding]; metal-binding site 555778006606 active site 555778006607 I-site; other site 555778006608 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 555778006609 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 555778006610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 555778006611 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 555778006612 putative dimerization interface [polypeptide binding]; other site 555778006613 glutathione reductase; Validated; Region: PRK06116 555778006614 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 555778006615 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 555778006616 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 555778006617 catalytic triad [active] 555778006618 dimer interface [polypeptide binding]; other site 555778006619 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 555778006620 diaminopimelate decarboxylase; Region: lysA; TIGR01048 555778006621 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 555778006622 active site 555778006623 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 555778006624 substrate binding site [chemical binding]; other site 555778006625 catalytic residues [active] 555778006626 dimer interface [polypeptide binding]; other site 555778006627 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 555778006628 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 555778006629 dimer interface [polypeptide binding]; other site 555778006630 active site 555778006631 heme binding site [chemical binding]; other site 555778006632 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 555778006633 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 555778006634 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 555778006635 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 555778006636 S-adenosylmethionine binding site [chemical binding]; other site 555778006637 PGAP1-like protein; Region: PGAP1; pfam07819 555778006638 acyl-CoA esterase; Provisional; Region: PRK10673 555778006639 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 555778006640 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 555778006641 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 555778006642 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 555778006643 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 555778006644 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 555778006645 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 555778006646 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 555778006647 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 555778006648 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 555778006649 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 555778006650 Protein export membrane protein; Region: SecD_SecF; pfam02355 555778006651 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 555778006652 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 555778006653 active site 555778006654 dimerization interface [polypeptide binding]; other site 555778006655 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 555778006656 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 555778006657 serine O-acetyltransferase; Region: cysE; TIGR01172 555778006658 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 555778006659 trimer interface [polypeptide binding]; other site 555778006660 active site 555778006661 substrate binding site [chemical binding]; other site 555778006662 CoA binding site [chemical binding]; other site 555778006663 Transcriptional regulator; Region: Rrf2; cl17282 555778006664 Rrf2 family protein; Region: rrf2_super; TIGR00738 555778006665 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 555778006666 active site 555778006667 multimer interface [polypeptide binding]; other site 555778006668 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 555778006669 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 555778006670 FeS/SAM binding site; other site 555778006671 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 555778006672 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 555778006673 TPR motif; other site 555778006674 binding surface 555778006675 Helix-turn-helix domain; Region: HTH_25; pfam13413 555778006676 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 555778006677 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 555778006678 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 555778006679 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 555778006680 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 555778006681 dimer interface [polypeptide binding]; other site 555778006682 motif 1; other site 555778006683 active site 555778006684 motif 2; other site 555778006685 motif 3; other site 555778006686 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 555778006687 anticodon binding site; other site 555778006688 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 555778006689 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 555778006690 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 555778006691 Trp docking motif [polypeptide binding]; other site 555778006692 active site 555778006693 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 555778006694 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 555778006695 metal binding site [ion binding]; metal-binding site 555778006696 dimer interface [polypeptide binding]; other site 555778006697 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 555778006698 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 555778006699 inhibitor-cofactor binding pocket; inhibition site 555778006700 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778006701 catalytic residue [active] 555778006702 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 555778006703 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 555778006704 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 555778006705 active site 555778006706 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 555778006707 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 555778006708 NAD(P) binding site [chemical binding]; other site 555778006709 catalytic residues [active] 555778006710 GTP-binding protein Der; Reviewed; Region: PRK00093 555778006711 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 555778006712 G1 box; other site 555778006713 GTP/Mg2+ binding site [chemical binding]; other site 555778006714 Switch I region; other site 555778006715 G2 box; other site 555778006716 Switch II region; other site 555778006717 G3 box; other site 555778006718 G4 box; other site 555778006719 G5 box; other site 555778006720 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 555778006721 G1 box; other site 555778006722 GTP/Mg2+ binding site [chemical binding]; other site 555778006723 Switch I region; other site 555778006724 G2 box; other site 555778006725 G3 box; other site 555778006726 Switch II region; other site 555778006727 G4 box; other site 555778006728 G5 box; other site 555778006729 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 555778006730 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 555778006731 Walker A/P-loop; other site 555778006732 ATP binding site [chemical binding]; other site 555778006733 Q-loop/lid; other site 555778006734 ABC transporter signature motif; other site 555778006735 Walker B; other site 555778006736 D-loop; other site 555778006737 H-loop/switch region; other site 555778006738 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 555778006739 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 555778006740 dimer interface [polypeptide binding]; other site 555778006741 conserved gate region; other site 555778006742 putative PBP binding loops; other site 555778006743 ABC-ATPase subunit interface; other site 555778006744 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 555778006745 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 555778006746 NMT1-like family; Region: NMT1_2; pfam13379 555778006747 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 555778006748 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 555778006749 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 555778006750 Walker A motif; other site 555778006751 ATP binding site [chemical binding]; other site 555778006752 Walker B motif; other site 555778006753 arginine finger; other site 555778006754 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 555778006755 Predicted integral membrane protein [Function unknown]; Region: COG5615 555778006756 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 555778006757 Rhodanese-like domain; Region: Rhodanese; pfam00581 555778006758 active site residue [active] 555778006759 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 555778006760 active site residue [active] 555778006761 Rubredoxin [Energy production and conversion]; Region: COG1773 555778006762 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 555778006763 iron binding site [ion binding]; other site 555778006764 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 555778006765 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 555778006766 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 555778006767 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 555778006768 active site 555778006769 OsmC-like protein; Region: OsmC; pfam02566 555778006770 Transposase; Region: DEDD_Tnp_IS110; pfam01548 555778006771 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 555778006772 cyanate hydratase; Validated; Region: PRK02866 555778006773 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 555778006774 oligomer interface [polypeptide binding]; other site 555778006775 active site 555778006776 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 555778006777 putative metal binding site [ion binding]; other site 555778006778 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 555778006779 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 555778006780 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 555778006781 putative active site [active] 555778006782 putative active site [active] 555778006783 catalytic site [active] 555778006784 catalytic site [active] 555778006785 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 555778006786 putative active site [active] 555778006787 catalytic site [active] 555778006788 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 555778006789 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 555778006790 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 555778006791 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 555778006792 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 555778006793 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 555778006794 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 555778006795 MASE1; Region: MASE1; pfam05231 555778006796 CHASE domain; Region: CHASE; pfam03924 555778006797 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 555778006798 PAS fold; Region: PAS_3; pfam08447 555778006799 putative active site [active] 555778006800 heme pocket [chemical binding]; other site 555778006801 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 555778006802 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 555778006803 metal binding site [ion binding]; metal-binding site 555778006804 active site 555778006805 I-site; other site 555778006806 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 555778006807 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 555778006808 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 555778006809 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 555778006810 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 555778006811 non-heme iron binding site [ion binding]; other site 555778006812 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 555778006813 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 555778006814 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 555778006815 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 555778006816 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 555778006817 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 555778006818 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 555778006819 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 555778006820 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 555778006821 active site 555778006822 HIGH motif; other site 555778006823 nucleotide binding site [chemical binding]; other site 555778006824 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 555778006825 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 555778006826 active site 555778006827 KMSKS motif; other site 555778006828 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 555778006829 tRNA binding surface [nucleotide binding]; other site 555778006830 anticodon binding site; other site 555778006831 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 555778006832 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 555778006833 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 555778006834 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 555778006835 Ligand binding site; other site 555778006836 Putative Catalytic site; other site 555778006837 DXD motif; other site 555778006838 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 555778006839 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 555778006840 putative acyl-acceptor binding pocket; other site 555778006841 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_5; cd06153 555778006842 homotrimer interaction site [polypeptide binding]; other site 555778006843 putative active site [active] 555778006844 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 555778006845 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 555778006846 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 555778006847 active site 555778006848 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 555778006849 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 555778006850 dimer interface [polypeptide binding]; other site 555778006851 active site 555778006852 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 555778006853 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 555778006854 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 555778006855 NAD(P) binding site [chemical binding]; other site 555778006856 active site 555778006857 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 555778006858 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 555778006859 NodB motif; other site 555778006860 active site 555778006861 catalytic site [active] 555778006862 metal binding site [ion binding]; metal-binding site 555778006863 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 555778006864 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 555778006865 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 555778006866 NADH(P)-binding; Region: NAD_binding_10; pfam13460 555778006867 NAD(P) binding site [chemical binding]; other site 555778006868 active site 555778006869 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 555778006870 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 555778006871 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 555778006872 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 555778006873 metal binding site [ion binding]; metal-binding site 555778006874 dimer interface [polypeptide binding]; other site 555778006875 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 555778006876 ArsC family; Region: ArsC; pfam03960 555778006877 putative catalytic residues [active] 555778006878 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 555778006879 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 555778006880 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 555778006881 dimerization interface [polypeptide binding]; other site 555778006882 active site 555778006883 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 555778006884 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 555778006885 putative ligand binding site [chemical binding]; other site 555778006886 putative NAD binding site [chemical binding]; other site 555778006887 catalytic site [active] 555778006888 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 555778006889 outer membrane protein A; Reviewed; Region: PRK10808 555778006890 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 555778006891 ligand binding site [chemical binding]; other site 555778006892 Bacterial Ig-like domain; Region: Big_5; pfam13205 555778006893 Bacterial Ig-like domain; Region: Big_5; pfam13205 555778006894 Protein of unknown function (DUF3494); Region: DUF3494; pfam11999 555778006895 Transposase; Region: HTH_Tnp_1; pfam01527 555778006896 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 555778006897 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 555778006898 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 555778006899 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 555778006900 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 555778006901 ligand binding site [chemical binding]; other site 555778006902 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 555778006903 non-specific DNA interactions [nucleotide binding]; other site 555778006904 DNA binding site [nucleotide binding] 555778006905 sequence specific DNA binding site [nucleotide binding]; other site 555778006906 putative cAMP binding site [chemical binding]; other site 555778006907 BON domain; Region: BON; pfam04972 555778006908 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 555778006909 BON domain; Region: BON; pfam04972 555778006910 BON domain; Region: BON; pfam04972 555778006911 CsbD-like; Region: CsbD; cl17424 555778006912 glutamate racemase; Provisional; Region: PRK00865 555778006913 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 555778006914 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 555778006915 active site 555778006916 phosphorylation site [posttranslational modification] 555778006917 intermolecular recognition site; other site 555778006918 dimerization interface [polypeptide binding]; other site 555778006919 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 555778006920 DNA binding site [nucleotide binding] 555778006921 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 555778006922 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 555778006923 dimer interface [polypeptide binding]; other site 555778006924 phosphorylation site [posttranslational modification] 555778006925 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 555778006926 ATP binding site [chemical binding]; other site 555778006927 Mg2+ binding site [ion binding]; other site 555778006928 G-X-G motif; other site 555778006929 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 555778006930 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 555778006931 active site 555778006932 phosphorylation site [posttranslational modification] 555778006933 intermolecular recognition site; other site 555778006934 dimerization interface [polypeptide binding]; other site 555778006935 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 555778006936 Walker A motif; other site 555778006937 ATP binding site [chemical binding]; other site 555778006938 Walker B motif; other site 555778006939 arginine finger; other site 555778006940 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 555778006941 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 555778006942 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 555778006943 dimer interface [polypeptide binding]; other site 555778006944 phosphorylation site [posttranslational modification] 555778006945 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 555778006946 ATP binding site [chemical binding]; other site 555778006947 Mg2+ binding site [ion binding]; other site 555778006948 G-X-G motif; other site 555778006949 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 555778006950 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 555778006951 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 555778006952 SelR domain; Region: SelR; pfam01641 555778006953 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 555778006954 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 555778006955 Ligand binding site; other site 555778006956 Putative Catalytic site; other site 555778006957 DXD motif; other site 555778006958 ProQ/FINO family; Region: ProQ; pfam04352 555778006959 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 555778006960 muropeptide transporter; Reviewed; Region: ampG; PRK11902 555778006961 Acetyl-coenzyme A transporter 1; Region: Acatn; pfam13000 555778006962 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 555778006963 putative substrate translocation pore; other site 555778006964 YcgL domain; Region: YcgL; cl01189 555778006965 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 555778006966 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 555778006967 active site 555778006968 dimer interface [polypeptide binding]; other site 555778006969 metal binding site [ion binding]; metal-binding site 555778006970 AAA domain; Region: AAA_22; pfam13401 555778006971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DamX; COG3266 555778006972 Sporulation related domain; Region: SPOR; pfam05036 555778006973 Predicted AdoMet-dependent methyltransferase; Region: AdoMet_MTase; pfam07757 555778006974 Methyltransferase domain; Region: Methyltransf_23; pfam13489 555778006975 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 555778006976 S-adenosylmethionine binding site [chemical binding]; other site 555778006977 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 555778006978 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 555778006979 substrate binding pocket [chemical binding]; other site 555778006980 membrane-bound complex binding site; other site 555778006981 hinge residues; other site 555778006982 HAMP domain; Region: HAMP; pfam00672 555778006983 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 555778006984 Zn2+ binding site [ion binding]; other site 555778006985 Mg2+ binding site [ion binding]; other site 555778006986 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 555778006987 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK06278 555778006988 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 555778006989 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 555778006990 active site 555778006991 dimer interface [polypeptide binding]; other site 555778006992 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 555778006993 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 555778006994 active site 555778006995 FMN binding site [chemical binding]; other site 555778006996 substrate binding site [chemical binding]; other site 555778006997 3Fe-4S cluster binding site [ion binding]; other site 555778006998 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 555778006999 domain interface; other site 555778007000 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 555778007001 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 555778007002 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 555778007003 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 555778007004 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 555778007005 RHS Repeat; Region: RHS_repeat; cl11982 555778007006 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 555778007007 RHS Repeat; Region: RHS_repeat; cl11982 555778007008 RHS Repeat; Region: RHS_repeat; pfam05593 555778007009 RHS Repeat; Region: RHS_repeat; pfam05593 555778007010 RHS Repeat; Region: RHS_repeat; cl11982 555778007011 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 555778007012 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 555778007013 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 555778007014 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 555778007015 catalytic residue [active] 555778007016 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 555778007017 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 555778007018 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 555778007019 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 555778007020 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cd00741 555778007021 nucleophilic elbow; other site 555778007022 catalytic triad; other site 555778007023 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 555778007024 binding surface 555778007025 Tetratricopeptide repeat; Region: TPR_16; pfam13432 555778007026 TPR motif; other site 555778007027 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 555778007028 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 555778007029 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 555778007030 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 555778007031 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 555778007032 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 555778007033 FHA domain; Region: FHA; pfam00498 555778007034 phosphopeptide binding site; other site 555778007035 Type II/IV secretion system protein; Region: T2SE; pfam00437 555778007036 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 555778007037 ATP binding site [chemical binding]; other site 555778007038 Walker A motif; other site 555778007039 hexamer interface [polypeptide binding]; other site 555778007040 Walker B motif; other site 555778007041 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 555778007042 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 555778007043 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 555778007044 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 555778007045 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 555778007046 TadE-like protein; Region: TadE; pfam07811 555778007047 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 555778007048 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 555778007049 ligand binding site [chemical binding]; other site 555778007050 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 555778007051 active site 555778007052 dimerization interface [polypeptide binding]; other site 555778007053 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 555778007054 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 555778007055 FeS/SAM binding site; other site 555778007056 HemN C-terminal domain; Region: HemN_C; pfam06969 555778007057 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 555778007058 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 555778007059 Substrate binding site; other site 555778007060 Mg++ binding site; other site 555778007061 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 555778007062 active site 555778007063 substrate binding site [chemical binding]; other site 555778007064 CoA binding site [chemical binding]; other site 555778007065 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 555778007066 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 555778007067 gamma subunit interface [polypeptide binding]; other site 555778007068 epsilon subunit interface [polypeptide binding]; other site 555778007069 LBP interface [polypeptide binding]; other site 555778007070 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 555778007071 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 555778007072 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 555778007073 alpha subunit interaction interface [polypeptide binding]; other site 555778007074 Walker A motif; other site 555778007075 ATP binding site [chemical binding]; other site 555778007076 Walker B motif; other site 555778007077 inhibitor binding site; inhibition site 555778007078 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 555778007079 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 555778007080 core domain interface [polypeptide binding]; other site 555778007081 delta subunit interface [polypeptide binding]; other site 555778007082 epsilon subunit interface [polypeptide binding]; other site 555778007083 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 555778007084 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 555778007085 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 555778007086 beta subunit interaction interface [polypeptide binding]; other site 555778007087 Walker A motif; other site 555778007088 ATP binding site [chemical binding]; other site 555778007089 Walker B motif; other site 555778007090 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 555778007091 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 555778007092 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 555778007093 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 555778007094 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 555778007095 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 555778007096 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 555778007097 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 555778007098 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 555778007099 ParB-like nuclease domain; Region: ParB; smart00470 555778007100 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 555778007101 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 555778007102 P-loop; other site 555778007103 Magnesium ion binding site [ion binding]; other site 555778007104 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 555778007105 Magnesium ion binding site [ion binding]; other site 555778007106 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 555778007107 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 555778007108 S-adenosylmethionine binding site [chemical binding]; other site 555778007109 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 555778007110 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 555778007111 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 555778007112 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 555778007113 DNA-binding site [nucleotide binding]; DNA binding site 555778007114 RNA-binding motif; other site 555778007115 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 555778007116 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 555778007117 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 555778007118 dimerization interface [polypeptide binding]; other site 555778007119 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 555778007120 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 555778007121 catalytic residues [active] 555778007122 transcription termination factor Rho; Provisional; Region: rho; PRK09376 555778007123 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 555778007124 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 555778007125 RNA binding site [nucleotide binding]; other site 555778007126 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 555778007127 multimer interface [polypeptide binding]; other site 555778007128 Walker A motif; other site 555778007129 ATP binding site [chemical binding]; other site 555778007130 Walker B motif; other site 555778007131 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 555778007132 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 555778007133 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 555778007134 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 555778007135 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 555778007136 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 555778007137 homodimer interaction site [polypeptide binding]; other site 555778007138 cofactor binding site; other site 555778007139 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 555778007140 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 555778007141 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 555778007142 preprotein translocase subunit SecB; Validated; Region: PRK05751 555778007143 SecA binding site; other site 555778007144 Preprotein binding site; other site 555778007145 thioredoxin 2; Provisional; Region: PRK10996 555778007146 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 555778007147 catalytic residues [active] 555778007148 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 555778007149 GSH binding site [chemical binding]; other site 555778007150 catalytic residues [active] 555778007151 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 555778007152 active site residue [active] 555778007153 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 555778007154 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 555778007155 dimerization interface [polypeptide binding]; other site 555778007156 putative DNA binding site [nucleotide binding]; other site 555778007157 putative Zn2+ binding site [ion binding]; other site 555778007158 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 555778007159 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 555778007160 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 555778007161 protein binding site [polypeptide binding]; other site 555778007162 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 555778007163 Catalytic dyad [active] 555778007164 DJ-1 family protein; Region: not_thiJ; TIGR01383 555778007165 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1; Region: GATase1_DJ-1; cd03135 555778007166 conserved cys residue [active] 555778007167 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 555778007168 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 555778007169 Nitrogen regulatory protein P-II; Region: P-II; smart00938 555778007170 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 555778007171 Predicted ATPase [General function prediction only]; Region: COG1485 555778007172 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 555778007173 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 555778007174 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 555778007175 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 555778007176 L-aspartate oxidase; Provisional; Region: PRK06175 555778007177 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 555778007178 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 555778007179 SdhC subunit interface [polypeptide binding]; other site 555778007180 proximal heme binding site [chemical binding]; other site 555778007181 cardiolipin binding site; other site 555778007182 Iron-sulfur protein interface; other site 555778007183 proximal quinone binding site [chemical binding]; other site 555778007184 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 555778007185 Iron-sulfur protein interface; other site 555778007186 proximal quinone binding site [chemical binding]; other site 555778007187 SdhD (CybS) interface [polypeptide binding]; other site 555778007188 proximal heme binding site [chemical binding]; other site 555778007189 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 555778007190 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 555778007191 DNA-binding site [nucleotide binding]; DNA binding site 555778007192 UTRA domain; Region: UTRA; pfam07702 555778007193 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 555778007194 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 555778007195 non-specific DNA binding site [nucleotide binding]; other site 555778007196 salt bridge; other site 555778007197 sequence-specific DNA binding site [nucleotide binding]; other site 555778007198 Cupin domain; Region: Cupin_2; pfam07883 555778007199 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 555778007200 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 555778007201 inhibitor-cofactor binding pocket; inhibition site 555778007202 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778007203 catalytic residue [active] 555778007204 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 555778007205 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 555778007206 tetrameric interface [polypeptide binding]; other site 555778007207 NAD binding site [chemical binding]; other site 555778007208 catalytic residues [active] 555778007209 Bacterial protein of unknown function (DUF939); Region: DUF939; pfam06081 555778007210 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 555778007211 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 555778007212 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 555778007213 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 555778007214 inhibitor-cofactor binding pocket; inhibition site 555778007215 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778007216 catalytic residue [active] 555778007217 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 555778007218 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 555778007219 NAD(P) binding site [chemical binding]; other site 555778007220 catalytic residues [active] 555778007221 succinic semialdehyde dehydrogenase; Region: PLN02278 555778007222 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 555778007223 tetramerization interface [polypeptide binding]; other site 555778007224 NAD(P) binding site [chemical binding]; other site 555778007225 catalytic residues [active] 555778007226 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 555778007227 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 555778007228 dimer interface [polypeptide binding]; other site 555778007229 conserved gate region; other site 555778007230 putative PBP binding loops; other site 555778007231 ABC-ATPase subunit interface; other site 555778007232 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 555778007233 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally 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 555778007234 dimer interface [polypeptide binding]; other site 555778007235 conserved gate region; other site 555778007236 putative PBP binding loops; other site 555778007237 ABC-ATPase subunit interface; other site 555778007238 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 555778007239 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 555778007240 Walker A/P-loop; other site 555778007241 ATP binding site [chemical binding]; other site 555778007242 Q-loop/lid; other site 555778007243 ABC transporter signature motif; other site 555778007244 Walker B; other site 555778007245 D-loop; other site 555778007246 H-loop/switch region; other site 555778007247 TOBE domain; Region: TOBE_2; pfam08402 555778007248 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 555778007249 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 555778007250 putative aminotransferase; Validated; Region: PRK07480 555778007251 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 555778007252 inhibitor-cofactor binding pocket; inhibition site 555778007253 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778007254 catalytic residue [active] 555778007255 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 555778007256 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 555778007257 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 555778007258 Peptidase C26; Region: Peptidase_C26; pfam07722 555778007259 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 555778007260 catalytic triad [active] 555778007261 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 555778007262 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 555778007263 DNA-binding site [nucleotide binding]; DNA binding site 555778007264 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 555778007265 pyridoxal 5'-phosphate binding site [chemical binding]; other site 555778007266 homodimer interface [polypeptide binding]; other site 555778007267 catalytic residue [active] 555778007268 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 555778007269 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 555778007270 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 555778007271 agmatinase; Region: agmatinase; TIGR01230 555778007272 oligomer interface [polypeptide binding]; other site 555778007273 putative active site [active] 555778007274 Mn binding site [ion binding]; other site 555778007275 aminotransferase; Validated; Region: PRK07046 555778007276 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 555778007277 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 555778007278 catalytic residue [active] 555778007279 Major Facilitator Superfamily; Region: MFS_1; pfam07690 555778007280 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 555778007281 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 555778007282 homotrimer interaction site [polypeptide binding]; other site 555778007283 putative active site [active] 555778007284 alanine racemase; Reviewed; Region: dadX; PRK03646 555778007285 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 555778007286 active site 555778007287 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 555778007288 substrate binding site [chemical binding]; other site 555778007289 catalytic residues [active] 555778007290 dimer interface [polypeptide binding]; other site 555778007291 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 555778007292 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 555778007293 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 555778007294 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 555778007295 putative DNA binding site [nucleotide binding]; other site 555778007296 putative Zn2+ binding site [ion binding]; other site 555778007297 AsnC family; Region: AsnC_trans_reg; pfam01037 555778007298 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 555778007299 Membrane fusogenic activity; Region: BMFP; pfam04380 555778007300 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 555778007301 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 555778007302 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 555778007303 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 555778007304 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 555778007305 S-adenosylmethionine binding site [chemical binding]; other site 555778007306 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 555778007307 S-adenosylmethionine binding site [chemical binding]; other site 555778007308 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 555778007309 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 555778007310 active site residue [active] 555778007311 selenophosphate synthetase; Provisional; Region: PRK00943 555778007312 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 555778007313 dimerization interface [polypeptide binding]; other site 555778007314 putative ATP binding site [chemical binding]; other site 555778007315 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 555778007316 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 555778007317 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 555778007318 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 555778007319 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 555778007320 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 555778007321 Cu(I) binding site [ion binding]; other site 555778007322 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 555778007323 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 555778007324 UbiA prenyltransferase family; Region: UbiA; pfam01040 555778007325 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 555778007326 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 555778007327 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 555778007328 D-pathway; other site 555778007329 Subunit I/VIIc interface [polypeptide binding]; other site 555778007330 Subunit I/IV interface [polypeptide binding]; other site 555778007331 Subunit I/II interface [polypeptide binding]; other site 555778007332 Low-spin heme (heme a) binding site [chemical binding]; other site 555778007333 Subunit I/III interface [polypeptide binding]; other site 555778007334 Subunit I/VIIa interface [polypeptide binding]; other site 555778007335 Dimer interface; other site 555778007336 Subunit I/VIa interface [polypeptide binding]; other site 555778007337 Putative water exit pathway; other site 555778007338 Binuclear center (heme a3/CuB) [ion binding]; other site 555778007339 K-pathway; other site 555778007340 Subunit I/Vb interface [polypeptide binding]; other site 555778007341 Putative proton exit pathway; other site 555778007342 Subunit I/VIb interface; other site 555778007343 Subunit I/VIc interface [polypeptide binding]; other site 555778007344 Electron transfer pathway; other site 555778007345 Subunit I/VIIIb interface [polypeptide binding]; other site 555778007346 Subunit I/VIIb interface [polypeptide binding]; other site 555778007347 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 555778007348 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 555778007349 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 555778007350 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 555778007351 Uncharacterized conserved protein (DUF2173); Region: DUF2173; cl01994 555778007352 Uncharacterized conserved protein (DUF2173); Region: DUF2173; cl01994 555778007353 Uncharacterized conserved protein (DUF2173); Region: DUF2173; cl01994 555778007354 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 555778007355 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 555778007356 trmE is a tRNA modification GTPase; Region: trmE; cd04164 555778007357 G1 box; other site 555778007358 GTP/Mg2+ binding site [chemical binding]; other site 555778007359 Switch I region; other site 555778007360 G2 box; other site 555778007361 Switch II region; other site 555778007362 G3 box; other site 555778007363 G4 box; other site 555778007364 G5 box; other site 555778007365 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 555778007366 membrane protein insertase; Provisional; Region: PRK01318 555778007367 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 555778007368 Haemolytic domain; Region: Haemolytic; pfam01809 555778007369 Ribonuclease P; Region: Ribonuclease_P; pfam00825 555778007370 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399