-- dump date 20120504_145417 -- class Genbank::misc_feature -- table misc_feature_note -- id note 391165000001 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 391165000002 Major Facilitator Superfamily; Region: MFS_1; pfam07690 391165000003 putative substrate translocation pore; other site 391165000004 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 391165000005 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 391165000006 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 391165000007 substrate binding site [chemical binding]; other site 391165000008 active site 391165000009 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 391165000010 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 391165000011 putative active site [active] 391165000012 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 391165000013 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 391165000014 HIGH motif; other site 391165000015 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 391165000016 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 391165000017 active site 391165000018 KMSKS motif; other site 391165000019 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 391165000020 tRNA binding surface [nucleotide binding]; other site 391165000021 Lipopolysaccharide-assembly; Region: LptE; cl01125 391165000022 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 391165000023 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 391165000024 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 391165000025 ParB-like nuclease domain; Region: ParBc; cl02129 391165000026 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 391165000027 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 391165000028 P-loop; other site 391165000029 Magnesium ion binding site [ion binding]; other site 391165000030 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 391165000031 Magnesium ion binding site [ion binding]; other site 391165000032 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; cl16911 391165000033 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 391165000034 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165000035 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 391165000036 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 391165000037 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 391165000038 trmE is a tRNA modification GTPase; Region: trmE; cd04164 391165000039 G1 box; other site 391165000040 GTP/Mg2+ binding site [chemical binding]; other site 391165000041 Switch I region; other site 391165000042 G2 box; other site 391165000043 Switch II region; other site 391165000044 G3 box; other site 391165000045 G4 box; other site 391165000046 G5 box; other site 391165000047 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 391165000048 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 391165000049 dimer interface [polypeptide binding]; other site 391165000050 [2Fe-2S] cluster binding site [ion binding]; other site 391165000051 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 391165000052 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 391165000053 catalytic residues [active] 391165000054 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 391165000055 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 391165000056 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 391165000057 DNA binding site [nucleotide binding] 391165000058 active site 391165000059 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 391165000060 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 391165000061 NADP binding site [chemical binding]; other site 391165000062 dimer interface [polypeptide binding]; other site 391165000063 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 protein; Region: CSP_CDS; cd04458 391165000064 DNA-binding site [nucleotide binding]; DNA binding site 391165000065 RNA-binding motif; other site 391165000066 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 391165000067 IHF - DNA interface [nucleotide binding]; other site 391165000068 IHF dimer interface [polypeptide binding]; other site 391165000069 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 391165000070 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 391165000071 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 391165000072 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 391165000073 Walker A/P-loop; other site 391165000074 ATP binding site [chemical binding]; other site 391165000075 Q-loop/lid; other site 391165000076 ABC transporter signature motif; other site 391165000077 Walker B; other site 391165000078 D-loop; other site 391165000079 H-loop/switch region; other site 391165000080 chaperone protein DnaJ; Provisional; Region: PRK10767 391165000081 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 391165000082 HSP70 interaction site [polypeptide binding]; other site 391165000083 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 391165000084 Zn binding sites [ion binding]; other site 391165000085 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 391165000086 dimer interface [polypeptide binding]; other site 391165000087 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 391165000088 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 391165000089 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 391165000090 dimer interface [polypeptide binding]; other site 391165000091 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 391165000092 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 391165000093 ribonuclease PH; Reviewed; Region: rph; PRK00173 391165000094 Ribonuclease PH; Region: RNase_PH_bact; cd11362 391165000095 hexamer interface [polypeptide binding]; other site 391165000096 active site 391165000097 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 391165000098 active site 391165000099 dimerization interface [polypeptide binding]; other site 391165000100 Nitroreductase-like family 2. 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_2; cd02138 391165000101 putative FMN binding site [chemical binding]; other site 391165000102 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 391165000103 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 391165000104 FeS/SAM binding site; other site 391165000105 HemN C-terminal domain; Region: HemN_C; pfam06969 391165000106 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 391165000107 active site 2 [active] 391165000108 active site 1 [active] 391165000109 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 391165000110 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 391165000111 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 391165000112 dimer interface [polypeptide binding]; other site 391165000113 active site 391165000114 Predicted exporter [General function prediction only]; Region: COG4258 391165000115 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 391165000116 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 391165000117 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 391165000118 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 391165000119 putative acyl-acceptor binding pocket; other site 391165000120 AMP-binding enzyme; Region: AMP-binding; cl15778 391165000121 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 391165000122 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 391165000123 putative active site [active] 391165000124 putative catalytic site [active] 391165000125 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 391165000126 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 391165000127 Gram-negative bacterial tonB protein; Region: TonB; cl10048 391165000128 Copper resistance protein D; Region: CopD; cl00563 391165000129 Bacterial Ig-like domain; Region: Big_5; cl01012 391165000130 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 391165000131 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 391165000132 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 391165000133 Potassium binding sites [ion binding]; other site 391165000134 Cesium cation binding sites [ion binding]; other site 391165000135 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 391165000136 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 391165000137 homodimer interface [polypeptide binding]; other site 391165000138 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165000139 catalytic residue [active] 391165000140 glycerate dehydrogenase; Provisional; Region: PRK06487 391165000141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165000142 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 391165000143 NADP binding domain of methylene tetrahydromethanopterin dehydrogenase; Region: NAD_bind_H4MPT_DH; cd01078 391165000144 NADP binding site [chemical binding]; other site 391165000145 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 391165000146 malate--CoA ligase subunit beta; Provisional; Region: PRK14046 391165000147 ATP-grasp domain; Region: ATP-grasp_4; cl03087 391165000148 CoA-ligase; Region: Ligase_CoA; cl02894 391165000149 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 391165000150 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165000151 CoA-ligase; Region: Ligase_CoA; cl02894 391165000152 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 391165000153 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 391165000154 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 391165000155 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 391165000156 active site clefts [active] 391165000157 zinc binding site [ion binding]; other site 391165000158 dimer interface [polypeptide binding]; other site 391165000159 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 391165000160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165000161 NAD(P) binding site [chemical binding]; other site 391165000162 active site 391165000163 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 391165000164 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 391165000165 putative substrate translocation pore; other site 391165000166 transcription termination factor Rho; Provisional; Region: rho; PRK09376 391165000167 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 391165000168 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 391165000169 RNA binding site [nucleotide binding]; other site 391165000170 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 391165000171 multimer interface [polypeptide binding]; other site 391165000172 Walker A motif; other site 391165000173 ATP binding site [chemical binding]; other site 391165000174 Walker B motif; other site 391165000175 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 391165000176 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 391165000177 active site 391165000178 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 391165000179 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 391165000180 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and...; Region: AdoHcyase; cd00401 391165000181 oligomerization interface [polypeptide binding]; other site 391165000182 active site 391165000183 NAD+ binding site [chemical binding]; other site 391165000184 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 391165000185 OsmC-like protein; Region: OsmC; cl00767 391165000186 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 391165000187 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 391165000188 catalytic triad [active] 391165000189 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 391165000190 catalytic core [active] 391165000191 Electron transfer flavoprotein domain; Region: ETF; pfam01012 391165000192 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 391165000193 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 391165000194 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 391165000195 Ligand Binding Site [chemical binding]; other site 391165000196 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 391165000197 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 391165000198 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 391165000199 Cysteine-rich domain; Region: CCG; pfam02754 391165000200 Cysteine-rich domain; Region: CCG; pfam02754 391165000201 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 391165000202 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 391165000203 putative active site [active] 391165000204 putative FMN binding site [chemical binding]; other site 391165000205 putative substrate binding site [chemical binding]; other site 391165000206 putative catalytic residue [active] 391165000207 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165000208 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 391165000209 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 391165000210 conserved cys residue [active] 391165000211 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 391165000212 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 391165000213 FAD binding pocket [chemical binding]; other site 391165000214 FAD binding motif [chemical binding]; other site 391165000215 phosphate binding motif [ion binding]; other site 391165000216 beta-alpha-beta structure motif; other site 391165000217 NAD binding pocket [chemical binding]; other site 391165000218 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 391165000219 catalytic loop [active] 391165000220 iron binding site [ion binding]; other site 391165000221 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 391165000222 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 391165000223 [2Fe-2S] cluster binding site [ion binding]; other site 391165000224 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 391165000225 putative alpha subunit interface [polypeptide binding]; other site 391165000226 putative active site [active] 391165000227 putative substrate binding site [chemical binding]; other site 391165000228 Fe binding site [ion binding]; other site 391165000229 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 391165000230 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 391165000231 conserved cys residue [active] 391165000232 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 391165000233 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 391165000234 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 391165000235 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 391165000236 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 391165000237 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 391165000238 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 391165000239 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 391165000240 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 391165000241 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165000242 NMT1-like family; Region: NMT1_2; cl15260 391165000243 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 391165000244 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 391165000245 dimer interface [polypeptide binding]; other site 391165000246 conserved gate region; other site 391165000247 ABC-ATPase subunit interface; other site 391165000248 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 391165000249 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165000250 Walker A/P-loop; other site 391165000251 ATP binding site [chemical binding]; other site 391165000252 Q-loop/lid; other site 391165000253 ABC transporter signature motif; other site 391165000254 Walker B; other site 391165000255 D-loop; other site 391165000256 H-loop/switch region; other site 391165000257 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 391165000258 GTP cyclohydrolase I; Provisional; Region: PLN03044 391165000259 active site 391165000260 Protein of unknown function (DUF525); Region: DUF525; cl01119 391165000261 O-succinylhomoserine sulfhydrylase; Provisional; Region: PRK07810 391165000262 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 391165000263 homodimer interface [polypeptide binding]; other site 391165000264 substrate-cofactor binding pocket; other site 391165000265 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165000266 catalytic residue [active] 391165000267 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 391165000268 potential catalytic triad [active] 391165000269 conserved cys residue [active] 391165000270 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 391165000271 dinuclear metal binding motif [ion binding]; other site 391165000272 YciF bacterial stress response protein, ferritin-like iron-binding domain; Region: YciF; cd07909 391165000273 dimerization interface [polypeptide binding]; other site 391165000274 metal binding site [ion binding]; metal-binding site 391165000275 short chain dehydrogenase; Provisional; Region: PRK06701 391165000276 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 391165000277 NAD binding site [chemical binding]; other site 391165000278 metal binding site [ion binding]; metal-binding site 391165000279 active site 391165000280 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 391165000281 Gram-negative bacterial tonB protein; Region: TonB; cl10048 391165000282 Cation efflux family; Region: Cation_efflux; cl00316 391165000283 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 391165000284 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 391165000285 putative NAD(P) binding site [chemical binding]; other site 391165000286 Bacterial PH domain; Region: DUF304; cl01348 391165000287 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 391165000288 active site 391165000289 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 391165000290 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 391165000291 NAD binding site [chemical binding]; other site 391165000292 substrate binding site [chemical binding]; other site 391165000293 homodimer interface [polypeptide binding]; other site 391165000294 active site 391165000295 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 391165000296 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 391165000297 substrate binding site; other site 391165000298 tetramer interface; other site 391165000299 Cupin domain; Region: Cupin_2; cl09118 391165000300 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 391165000301 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 391165000302 NADP binding site [chemical binding]; other site 391165000303 active site 391165000304 putative substrate binding site [chemical binding]; other site 391165000305 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 391165000306 Probable Catalytic site; other site 391165000307 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 391165000308 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 391165000309 ThiC-associated domain; Region: ThiC-associated; pfam13667 391165000310 ThiC family; Region: ThiC; cl08031 391165000311 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 391165000312 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 391165000313 binding surface 391165000314 Tetratricopeptide repeat; Region: TPR_9; pfam13371 391165000315 TPR motif; other site 391165000316 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 391165000317 Proline dehydrogenase; Region: Pro_dh; cl03282 391165000318 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 391165000319 NAD(P) binding site [chemical binding]; other site 391165000320 catalytic residues [active] 391165000321 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 391165000322 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 391165000323 heme binding site [chemical binding]; other site 391165000324 ferroxidase pore; other site 391165000325 ferroxidase diiron center [ion binding]; other site 391165000326 glutathione synthetase; Provisional; Region: PRK05246 391165000327 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 391165000328 ATP-grasp domain; Region: ATP-grasp_4; cl03087 391165000329 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 391165000330 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 391165000331 active site 391165000332 motif I; other site 391165000333 motif II; other site 391165000334 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 391165000335 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial protein Rv2277c and similar proteins; Region: GDPD_Rv2277c_like; cd08580 391165000336 putative active site [active] 391165000337 catalytic site [active] 391165000338 putative metal binding site [ion binding]; other site 391165000339 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 391165000340 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 391165000341 Transporter associated domain; Region: CorC_HlyC; cl08393 391165000342 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 391165000343 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 391165000344 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165000345 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 391165000346 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 391165000347 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 391165000348 FeS/SAM binding site; other site 391165000349 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 391165000350 putative acyl-acceptor binding pocket; other site 391165000351 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 391165000352 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 391165000353 Surface antigen; Region: Bac_surface_Ag; cl03097 391165000354 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 391165000355 Family of unknown function (DUF490); Region: DUF490; pfam04357 391165000356 Family of unknown function (DUF490); Region: DUF490; pfam04357 391165000357 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 391165000358 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 391165000359 Trp docking motif [polypeptide binding]; other site 391165000360 dimer interface [polypeptide binding]; other site 391165000361 active site 391165000362 small subunit binding site [polypeptide binding]; other site 391165000363 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 391165000364 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 391165000365 dimer interface [polypeptide binding]; other site 391165000366 conserved gate region; other site 391165000367 putative PBP binding loops; other site 391165000368 ABC-ATPase subunit interface; other site 391165000369 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 391165000370 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 391165000371 dimer interface [polypeptide binding]; other site 391165000372 conserved gate region; other site 391165000373 putative PBP binding loops; other site 391165000374 ABC-ATPase subunit interface; other site 391165000375 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 391165000376 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 391165000377 CreA protein; Region: CreA; pfam05981 391165000378 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 391165000379 catalytic residues [active] 391165000380 argininosuccinate lyase; Provisional; Region: PRK00855 391165000381 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 391165000382 active sites [active] 391165000383 tetramer interface [polypeptide binding]; other site 391165000384 diaminopimelate decarboxylase; Region: lysA; TIGR01048 391165000385 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 391165000386 active site 391165000387 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 391165000388 substrate binding site [chemical binding]; other site 391165000389 catalytic residues [active] 391165000390 dimer interface [polypeptide binding]; other site 391165000391 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 391165000392 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 391165000393 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165000394 Walker A/P-loop; other site 391165000395 ATP binding site [chemical binding]; other site 391165000396 Q-loop/lid; other site 391165000397 ABC transporter signature motif; other site 391165000398 Walker B; other site 391165000399 D-loop; other site 391165000400 H-loop/switch region; other site 391165000401 FtsX-like permease family; Region: FtsX; cl15850 391165000402 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 391165000403 putative active site [active] 391165000404 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 391165000405 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 391165000406 putative acyl-acceptor binding pocket; other site 391165000407 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 391165000408 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 391165000409 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 391165000410 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 391165000411 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 391165000412 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165000413 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 391165000414 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 391165000415 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165000416 homodimer interface [polypeptide binding]; other site 391165000417 catalytic residue [active] 391165000418 hypothetical protein; Provisional; Region: PRK06034 391165000419 Chorismate mutase type II; Region: CM_2; cl00693 391165000420 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 391165000421 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 391165000422 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 391165000423 S-adenosylmethionine binding site [chemical binding]; other site 391165000424 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 391165000425 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 391165000426 dimerization interface [polypeptide binding]; other site 391165000427 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 391165000428 dimer interface [polypeptide binding]; other site 391165000429 phosphorylation site [posttranslational modification] 391165000430 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 391165000431 ATP binding site [chemical binding]; other site 391165000432 Mg2+ binding site [ion binding]; other site 391165000433 G-X-G motif; other site 391165000434 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 391165000435 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 391165000436 active site 391165000437 phosphorylation site [posttranslational modification] 391165000438 intermolecular recognition site; other site 391165000439 dimerization interface [polypeptide binding]; other site 391165000440 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 391165000441 DNA binding site [nucleotide binding] 391165000442 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 391165000443 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 391165000444 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 391165000445 protein binding site [polypeptide binding]; other site 391165000446 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 391165000447 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 391165000448 ATP binding site [chemical binding]; other site 391165000449 putative Mg++ binding site [ion binding]; other site 391165000450 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 391165000451 nucleotide binding region [chemical binding]; other site 391165000452 Helicase associated domain (HA2); Region: HA2; cl04503 391165000453 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 391165000454 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 391165000455 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 391165000456 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 391165000457 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 391165000458 DsbD alpha interface [polypeptide binding]; other site 391165000459 catalytic residues [active] 391165000460 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 391165000461 NifU-like domain; Region: NifU; cl00484 391165000462 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 391165000463 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 391165000464 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 391165000465 substrate binding pocket [chemical binding]; other site 391165000466 dimer interface [polypeptide binding]; other site 391165000467 inhibitor binding site; inhibition site 391165000468 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 391165000469 B12 binding site [chemical binding]; other site 391165000470 cobalt ligand [ion binding]; other site 391165000471 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 391165000472 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 391165000473 dimerization interface [polypeptide binding]; other site 391165000474 putative DNA binding site [nucleotide binding]; other site 391165000475 putative Zn2+ binding site [ion binding]; other site 391165000476 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 391165000477 S-adenosylmethionine binding site [chemical binding]; other site 391165000478 tocopherol O-methyltransferase; Region: PLN02244 391165000479 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 391165000480 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 391165000481 Walker A/P-loop; other site 391165000482 ATP binding site [chemical binding]; other site 391165000483 Q-loop/lid; other site 391165000484 ABC transporter signature motif; other site 391165000485 Walker B; other site 391165000486 D-loop; other site 391165000487 H-loop/switch region; other site 391165000488 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 391165000489 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 391165000490 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 391165000491 dimer interface [polypeptide binding]; other site 391165000492 conserved gate region; other site 391165000493 putative PBP binding loops; other site 391165000494 ABC-ATPase subunit interface; other site 391165000495 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 391165000496 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 391165000497 trimer interface [polypeptide binding]; other site 391165000498 active site 391165000499 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 391165000500 Flavoprotein; Region: Flavoprotein; cl08021 391165000501 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 391165000502 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 391165000503 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 391165000504 S-adenosylmethionine binding site [chemical binding]; other site 391165000505 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 391165000506 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 391165000507 DNA binding site [nucleotide binding] 391165000508 catalytic residue [active] 391165000509 H2TH interface [polypeptide binding]; other site 391165000510 putative catalytic residues [active] 391165000511 turnover-facilitating residue; other site 391165000512 intercalation triad [nucleotide binding]; other site 391165000513 8OG recognition residue [nucleotide binding]; other site 391165000514 putative reading head residues; other site 391165000515 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 391165000516 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 391165000517 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 391165000518 DnaA N-terminal domain; Region: DnaA_N; pfam11638 391165000519 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 391165000520 Walker A motif; other site 391165000521 ATP binding site [chemical binding]; other site 391165000522 Walker B motif; other site 391165000523 arginine finger; other site 391165000524 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 391165000525 DnaA box-binding interface [nucleotide binding]; other site 391165000526 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 391165000527 Mg++ binding site [ion binding]; other site 391165000528 putative catalytic motif [active] 391165000529 substrate binding site [chemical binding]; other site 391165000530 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 391165000531 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 391165000532 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 391165000533 NAD(P) binding site [chemical binding]; other site 391165000534 homodimer interface [polypeptide binding]; other site 391165000535 substrate binding site [chemical binding]; other site 391165000536 active site 391165000537 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 391165000538 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 391165000539 inhibitor-cofactor binding pocket; inhibition site 391165000540 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165000541 catalytic residue [active] 391165000542 Protein of unknown function (DUF423); Region: DUF423; cl01008 391165000543 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 391165000544 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 391165000545 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 391165000546 putative C-terminal domain interface [polypeptide binding]; other site 391165000547 putative GSH binding site (G-site) [chemical binding]; other site 391165000548 putative dimer interface [polypeptide binding]; other site 391165000549 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 391165000550 putative N-terminal domain interface [polypeptide binding]; other site 391165000551 putative dimer interface [polypeptide binding]; other site 391165000552 putative substrate binding pocket (H-site) [chemical binding]; other site 391165000553 O-Antigen ligase; Region: Wzy_C; cl04850 391165000554 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 391165000555 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 391165000556 P-loop, Walker A motif; other site 391165000557 Base recognition motif; other site 391165000558 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 391165000559 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 391165000560 structural tetrad; other site 391165000561 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 391165000562 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 391165000563 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 391165000564 N-terminal plug; other site 391165000565 ligand-binding site [chemical binding]; other site 391165000566 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 391165000567 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 391165000568 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 391165000569 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 391165000570 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 391165000571 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 391165000572 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165000573 Transcriptional regulator [Transcription]; Region: LysR; COG0583 391165000574 Helix-turn-helix domains; Region: HTH; cl00088 391165000575 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 391165000576 dimerization interface [polypeptide binding]; other site 391165000577 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 391165000578 non-specific DNA binding site [nucleotide binding]; other site 391165000579 salt bridge; other site 391165000580 sequence-specific DNA binding site [nucleotide binding]; other site 391165000581 Cupin domain; Region: Cupin_2; cl09118 391165000582 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 391165000583 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 391165000584 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 391165000585 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 391165000586 K+-transporting ATPase, c chain; Region: KdpC; cl00944 391165000587 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 391165000588 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 391165000589 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 391165000590 Ligand Binding Site [chemical binding]; other site 391165000591 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 391165000592 GAF domain; Region: GAF; cl15785 391165000593 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 391165000594 dimer interface [polypeptide binding]; other site 391165000595 phosphorylation site [posttranslational modification] 391165000596 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 391165000597 ATP binding site [chemical binding]; other site 391165000598 Mg2+ binding site [ion binding]; other site 391165000599 G-X-G motif; other site 391165000600 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 391165000601 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 391165000602 active site 391165000603 phosphorylation site [posttranslational modification] 391165000604 intermolecular recognition site; other site 391165000605 dimerization interface [polypeptide binding]; other site 391165000606 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 391165000607 DNA binding site [nucleotide binding] 391165000608 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 391165000609 ArsC family; Region: ArsC; pfam03960 391165000610 catalytic residues [active] 391165000611 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 391165000612 Paraquat-inducible protein A; Region: PqiA; pfam04403 391165000613 Paraquat-inducible protein A; Region: PqiA; pfam04403 391165000614 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 391165000615 mce related protein; Region: MCE; pfam02470 391165000616 mce related protein; Region: MCE; pfam02470 391165000617 Protein of unknown function (DUF330); Region: DUF330; cl01135 391165000618 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 391165000619 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 391165000620 Coenzyme A binding pocket [chemical binding]; other site 391165000621 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 391165000622 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). The cleavage...; Region: Peptidase_C39_like; cd02259 391165000623 putative active site [active] 391165000624 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 391165000625 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165000626 Walker A/P-loop; other site 391165000627 ATP binding site [chemical binding]; other site 391165000628 Q-loop/lid; other site 391165000629 ABC transporter signature motif; other site 391165000630 Walker B; other site 391165000631 D-loop; other site 391165000632 H-loop/switch region; other site 391165000633 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 391165000634 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 391165000635 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 391165000636 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 391165000637 Sel1 repeat; Region: Sel1; cl02723 391165000638 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 391165000639 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 391165000640 Sel1 repeat; Region: Sel1; cl02723 391165000641 Sel1 repeat; Region: Sel1; cl02723 391165000642 Sel1 repeat; Region: Sel1; cl02723 391165000643 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 391165000644 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 391165000645 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 391165000646 Probable Catalytic site; other site 391165000647 metal-binding site 391165000648 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 391165000649 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 391165000650 putative ADP-binding pocket [chemical binding]; other site 391165000651 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 391165000652 dimer interface [polypeptide binding]; other site 391165000653 substrate binding site [chemical binding]; other site 391165000654 metal binding sites [ion binding]; metal-binding site 391165000655 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 391165000656 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165000657 Walker A/P-loop; other site 391165000658 ATP binding site [chemical binding]; other site 391165000659 Q-loop/lid; other site 391165000660 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 391165000661 ABC transporter; Region: ABC_tran_2; pfam12848 391165000662 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 391165000663 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 391165000664 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 391165000665 PQQ-like domain; Region: PQQ_2; pfam13360 391165000666 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 391165000667 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 391165000668 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 391165000669 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 391165000670 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 391165000671 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 391165000672 putative hydrophobic ligand binding site [chemical binding]; other site 391165000673 protein interface [polypeptide binding]; other site 391165000674 gate; other site 391165000675 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 391165000676 VacJ like lipoprotein; Region: VacJ; cl01073 391165000677 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 391165000678 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 391165000679 FAD binding site [chemical binding]; other site 391165000680 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 391165000681 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165000682 Family description; Region: UvrD_C_2; cl15862 391165000683 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 391165000684 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; cl16911 391165000685 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 391165000686 ribonuclease D; Region: rnd; TIGR01388 391165000687 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 391165000688 catalytic site [active] 391165000689 putative active site [active] 391165000690 putative substrate binding site [chemical binding]; other site 391165000691 HRDC domain; Region: HRDC; cl02578 391165000692 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 391165000693 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 391165000694 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 391165000695 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 391165000696 dimer interface [polypeptide binding]; other site 391165000697 anticodon binding site; other site 391165000698 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 391165000699 homodimer interface [polypeptide binding]; other site 391165000700 motif 1; other site 391165000701 active site 391165000702 motif 2; other site 391165000703 GAD domain; Region: GAD; pfam02938 391165000704 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 391165000705 active site 391165000706 motif 3; other site 391165000707 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 391165000708 DNA polymerase IV; Provisional; Region: PRK02794 391165000709 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 391165000710 active site 391165000711 DNA binding site [nucleotide binding] 391165000712 fructokinase; Reviewed; Region: PRK09557 391165000713 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 391165000714 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 391165000715 CPxP motif; other site 391165000716 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 391165000717 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 391165000718 substrate binding pocket [chemical binding]; other site 391165000719 chain length determination region; other site 391165000720 substrate-Mg2+ binding site; other site 391165000721 catalytic residues [active] 391165000722 aspartate-rich region 1; other site 391165000723 active site lid residues [active] 391165000724 aspartate-rich region 2; other site 391165000725 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 391165000726 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 391165000727 TPP-binding site; other site 391165000728 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 391165000729 PYR/PP interface [polypeptide binding]; other site 391165000730 dimer interface [polypeptide binding]; other site 391165000731 TPP binding site [chemical binding]; other site 391165000732 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 391165000733 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 391165000734 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 391165000735 RNA binding surface [nucleotide binding]; other site 391165000736 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; cl16911 391165000737 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 391165000738 AMP-binding enzyme; Region: AMP-binding; cl15778 391165000739 Phosphopantetheine attachment site; Region: PP-binding; cl09936 391165000740 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 391165000741 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 391165000742 putative trimer interface [polypeptide binding]; other site 391165000743 putative CoA binding site [chemical binding]; other site 391165000744 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 391165000745 putative trimer interface [polypeptide binding]; other site 391165000746 putative CoA binding site [chemical binding]; other site 391165000747 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 391165000748 putative trimer interface [polypeptide binding]; other site 391165000749 putative CoA binding site [chemical binding]; other site 391165000750 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 391165000751 Tetramer interface [polypeptide binding]; other site 391165000752 active site 391165000753 FMN-binding site [chemical binding]; other site 391165000754 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 391165000755 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 391165000756 NAD binding site [chemical binding]; other site 391165000757 homotetramer interface [polypeptide binding]; other site 391165000758 homodimer interface [polypeptide binding]; other site 391165000759 substrate binding site [chemical binding]; other site 391165000760 active site 391165000761 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 391165000762 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 391165000763 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 391165000764 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 391165000765 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 391165000766 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 391165000767 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 391165000768 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 391165000769 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 391165000770 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 391165000771 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 391165000772 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 391165000773 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 391165000774 active site 391165000775 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 391165000776 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 391165000777 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 391165000778 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 391165000779 catalytic residue [active] 391165000780 Phosphopantetheine attachment site; Region: PP-binding; cl09936 391165000781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165000782 NAD(P) binding site [chemical binding]; other site 391165000783 active site 391165000784 acyl-CoA synthetase; Validated; Region: PRK09192 391165000785 AMP-binding enzyme; Region: AMP-binding; cl15778 391165000786 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; cl01930 391165000787 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: GT1_like_7; cd05844 391165000788 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 391165000789 putative ADP-binding pocket [chemical binding]; other site 391165000790 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 391165000791 Radical SAM superfamily; Region: Radical_SAM; pfam04055 391165000792 FeS/SAM binding site; other site 391165000793 MatE; Region: MatE; cl10513 391165000794 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 391165000795 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 391165000796 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 391165000797 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 391165000798 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 391165000799 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 391165000800 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 391165000801 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 391165000802 catalytic residues [active] 391165000803 Trm112p-like protein; Region: Trm112p; cl01066 391165000804 Protein of unknown function (DUF971); Region: DUF971; cl01414 391165000805 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 391165000806 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 391165000807 active site 391165000808 catalytic tetrad [active] 391165000809 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 391165000810 PAS domain; Region: PAS_9; pfam13426 391165000811 putative active site [active] 391165000812 heme pocket [chemical binding]; other site 391165000813 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 391165000814 PAS fold; Region: PAS_3; pfam08447 391165000815 putative active site [active] 391165000816 heme pocket [chemical binding]; other site 391165000817 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 391165000818 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 391165000819 dimer interface [polypeptide binding]; other site 391165000820 phosphorylation site [posttranslational modification] 391165000821 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 391165000822 ATP binding site [chemical binding]; other site 391165000823 Mg2+ binding site [ion binding]; other site 391165000824 G-X-G motif; other site 391165000825 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 391165000826 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 391165000827 active site 391165000828 dimer interface [polypeptide binding]; other site 391165000829 non-prolyl cis peptide bond; other site 391165000830 insertion regions; other site 391165000831 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 391165000832 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 391165000833 substrate binding pocket [chemical binding]; other site 391165000834 membrane-bound complex binding site; other site 391165000835 hinge residues; other site 391165000836 recombination protein RecR; Reviewed; Region: recR; PRK00076 391165000837 RecR protein; Region: RecR; pfam02132 391165000838 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 391165000839 putative active site [active] 391165000840 putative metal-binding site [ion binding]; other site 391165000841 tetramer interface [polypeptide binding]; other site 391165000842 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 391165000843 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 391165000844 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 391165000845 Walker A motif; other site 391165000846 ATP binding site [chemical binding]; other site 391165000847 Walker B motif; other site 391165000848 arginine finger; other site 391165000849 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 391165000850 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 391165000851 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 391165000852 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 391165000853 ANP binding site [chemical binding]; other site 391165000854 Substrate Binding Site II [chemical binding]; other site 391165000855 Substrate Binding Site I [chemical binding]; other site 391165000856 MarC family integral membrane protein; Region: MarC; cl00919 391165000857 acetyl-CoA synthetase; Provisional; Region: PRK00174 391165000858 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 391165000859 AMP-binding enzyme; Region: AMP-binding; cl15778 391165000860 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 391165000861 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 391165000862 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 391165000863 Cytochrome C biogenesis protein; Region: CcmH; cl01179 391165000864 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 391165000865 catalytic residues [active] 391165000866 central insert; other site 391165000867 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 391165000868 CcmE; Region: CcmE; cl00994 391165000869 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 391165000870 YCII-related domain; Region: YCII; cl00999 391165000871 EVE domain; Region: EVE; cl00728 391165000872 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 391165000873 iron-sulfur cluster [ion binding]; other site 391165000874 [2Fe-2S] cluster binding site [ion binding]; other site 391165000875 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 391165000876 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 391165000877 YGGT family; Region: YGGT; cl00508 391165000878 benzoate transport; Region: 2A0115; TIGR00895 391165000879 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 391165000880 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 391165000881 peptide chain release factor 2; Provisional; Region: PRK07342 391165000882 RF-1 domain; Region: RF-1; cl02875 391165000883 RF-1 domain; Region: RF-1; cl02875 391165000884 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 391165000885 Transglycosylase; Region: Transgly; cl07896 391165000886 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 391165000887 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 391165000888 active site 391165000889 metal binding site [ion binding]; metal-binding site 391165000890 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 391165000891 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 391165000892 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 391165000893 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 391165000894 heme binding pocket [chemical binding]; other site 391165000895 heme ligand [chemical binding]; other site 391165000896 NAD synthetase; Reviewed; Region: nadE; PRK02628 391165000897 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 391165000898 multimer interface [polypeptide binding]; other site 391165000899 active site 391165000900 catalytic triad [active] 391165000901 protein interface 1 [polypeptide binding]; other site 391165000902 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 391165000903 homodimer interface [polypeptide binding]; other site 391165000904 NAD binding pocket [chemical binding]; other site 391165000905 ATP binding pocket [chemical binding]; other site 391165000906 Mg binding site [ion binding]; other site 391165000907 active-site loop [active] 391165000908 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 391165000909 dimer interface [polypeptide binding]; other site 391165000910 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 391165000911 metal binding site [ion binding]; metal-binding site 391165000912 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 391165000913 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 391165000914 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 391165000915 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 391165000916 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 391165000917 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 391165000918 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 391165000919 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 391165000920 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 391165000921 active site 391165000922 LysR family transcriptional regulator; Provisional; Region: PRK14997 391165000923 Helix-turn-helix domains; Region: HTH; cl00088 391165000924 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 391165000925 putative effector binding pocket; other site 391165000926 dimerization interface [polypeptide binding]; other site 391165000927 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 391165000928 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 391165000929 Ribbon-helix-helix domain; Region: RHH_4; cl01775 391165000930 Predicted nucleotidyltransferase; Region: Nuc-transf; cl01417 391165000931 Cupin domain; Region: Cupin_2; cl09118 391165000932 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 391165000933 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 391165000934 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 391165000935 S-adenosylmethionine binding site [chemical binding]; other site 391165000936 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 391165000937 substrate binding site [chemical binding]; other site 391165000938 multimerization interface [polypeptide binding]; other site 391165000939 ATP binding site [chemical binding]; other site 391165000940 CsbD-like; Region: CsbD; cl15799 391165000941 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 391165000942 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 391165000943 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 391165000944 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 391165000945 substrate-cofactor binding pocket; other site 391165000946 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165000947 catalytic residue [active] 391165000948 allantoate amidohydrolase; Reviewed; Region: PRK09290 391165000949 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 391165000950 active site 391165000951 metal binding site [ion binding]; metal-binding site 391165000952 dimer interface [polypeptide binding]; other site 391165000953 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165000954 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 391165000955 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 391165000956 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 391165000957 Phosphoglycerate kinase; Region: PGK; pfam00162 391165000958 substrate binding site [chemical binding]; other site 391165000959 hinge regions; other site 391165000960 ADP binding site [chemical binding]; other site 391165000961 catalytic site [active] 391165000962 Predicted small integral membrane protein (DUF2165); Region: DUF2165; cl02290 391165000963 Ferredoxin [Energy production and conversion]; Region: COG1146 391165000964 4Fe-4S binding domain; Region: Fer4; cl02805 391165000965 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 391165000966 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 391165000967 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 391165000968 nucleotide binding region [chemical binding]; other site 391165000969 ATP-binding site [chemical binding]; other site 391165000970 heat shock protein 90; Provisional; Region: PRK05218 391165000971 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 391165000972 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 391165000973 interface (dimer of trimers) [polypeptide binding]; other site 391165000974 Substrate-binding/catalytic site; other site 391165000975 Zn-binding sites [ion binding]; other site 391165000976 Helix-turn-helix domains; Region: HTH; cl00088 391165000977 DNA polymerase III subunit beta; Validated; Region: PRK05643 391165000978 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 391165000979 putative DNA binding surface [nucleotide binding]; other site 391165000980 dimer interface [polypeptide binding]; other site 391165000981 beta-clamp/clamp loader binding surface; other site 391165000982 beta-clamp/translesion DNA polymerase binding surface; other site 391165000983 recombination protein F; Reviewed; Region: recF; PRK00064 391165000984 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165000985 Walker A/P-loop; other site 391165000986 ATP binding site [chemical binding]; other site 391165000987 Q-loop/lid; other site 391165000988 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165000989 ABC transporter signature motif; other site 391165000990 Walker B; other site 391165000991 D-loop; other site 391165000992 H-loop/switch region; other site 391165000993 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 391165000994 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 391165000995 ATP binding site [chemical binding]; other site 391165000996 Mg2+ binding site [ion binding]; other site 391165000997 G-X-G motif; other site 391165000998 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 391165000999 anchoring element; other site 391165001000 dimer interface [polypeptide binding]; other site 391165001001 ATP binding site [chemical binding]; other site 391165001002 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 391165001003 active site 391165001004 putative metal-binding site [ion binding]; other site 391165001005 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 391165001006 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 391165001007 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 391165001008 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 391165001009 catalytic motif [active] 391165001010 Catalytic residue [active] 391165001011 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 391165001012 catalytic motif [active] 391165001013 Catalytic residue [active] 391165001014 DNA repair protein RadA; Provisional; Region: PRK11823 391165001015 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 391165001016 Walker A motif/ATP binding site; other site 391165001017 ATP binding site [chemical binding]; other site 391165001018 Walker B motif; other site 391165001019 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 391165001020 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 391165001021 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 391165001022 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 391165001023 putative active site [active] 391165001024 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 391165001025 Predicted amidohydrolase [General function prediction only]; Region: COG0388 391165001026 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 391165001027 putative active site [active] 391165001028 catalytic triad [active] 391165001029 dimer interface [polypeptide binding]; other site 391165001030 OpgC protein; Region: OpgC_C; cl00792 391165001031 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 391165001032 active site 391165001033 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 391165001034 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 391165001035 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 391165001036 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 391165001037 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 391165001038 putative hydrophobic ligand binding site [chemical binding]; other site 391165001039 protein interface [polypeptide binding]; other site 391165001040 gate; other site 391165001041 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 391165001042 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 391165001043 Trp docking motif [polypeptide binding]; other site 391165001044 dimer interface [polypeptide binding]; other site 391165001045 active site 391165001046 small subunit binding site [polypeptide binding]; other site 391165001047 methanol oxidation system protein MoxJ; Region: ABC_MoxJ; TIGR03870 391165001048 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 391165001049 substrate binding pocket [chemical binding]; other site 391165001050 membrane-bound complex binding site; other site 391165001051 hinge residues; other site 391165001052 Cytochrome c; Region: Cytochrom_C; cl11414 391165001053 Methanol dehydrogenase beta subunit; Region: MDH; pfam02315 391165001054 MoxR-like ATPases [General function prediction only]; Region: COG0714 391165001055 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 391165001056 Walker A motif; other site 391165001057 ATP binding site [chemical binding]; other site 391165001058 Walker B motif; other site 391165001059 arginine finger; other site 391165001060 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 391165001061 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 391165001062 metal ion-dependent adhesion site (MIDAS); other site 391165001063 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 391165001064 metal ion-dependent adhesion site (MIDAS); other site 391165001065 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 391165001066 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 391165001067 Histidine kinase; Region: HisKA_3; pfam07730 391165001068 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 391165001069 ATP binding site [chemical binding]; other site 391165001070 Mg2+ binding site [ion binding]; other site 391165001071 G-X-G motif; other site 391165001072 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 391165001073 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 391165001074 active site 391165001075 phosphorylation site [posttranslational modification] 391165001076 intermolecular recognition site; other site 391165001077 dimerization interface [polypeptide binding]; other site 391165001078 Helix-turn-helix domains; Region: HTH; cl00088 391165001079 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 391165001080 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 391165001081 Substrate binding site; other site 391165001082 Cupin domain; Region: Cupin_2; cl09118 391165001083 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 391165001084 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 391165001085 ligand binding site [chemical binding]; other site 391165001086 Uncharacterized conserved protein [Function unknown]; Region: COG2308 391165001087 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 391165001088 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 391165001089 pyruvate kinase; Provisional; Region: PRK06247 391165001090 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 391165001091 domain interfaces; other site 391165001092 active site 391165001093 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 391165001094 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 391165001095 MOFRL family; Region: MOFRL; pfam05161 391165001096 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 391165001097 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 391165001098 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 391165001099 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 391165001100 active site 391165001101 Zn binding site [ion binding]; other site 391165001102 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 391165001103 Transglycosylase; Region: Transgly; cl07896 391165001104 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 391165001105 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 391165001106 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 391165001107 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 391165001108 N-terminal plug; other site 391165001109 ligand-binding site [chemical binding]; other site 391165001110 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 391165001111 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 391165001112 dimerization interface [polypeptide binding]; other site 391165001113 putative DNA binding site [nucleotide binding]; other site 391165001114 putative Zn2+ binding site [ion binding]; other site 391165001115 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 391165001116 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 391165001117 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 391165001118 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 391165001119 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 391165001120 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 391165001121 catalytic residues [active] 391165001122 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 391165001123 aspartate aminotransferase; Provisional; Region: PRK05764 391165001124 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 391165001125 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165001126 homodimer interface [polypeptide binding]; other site 391165001127 catalytic residue [active] 391165001128 Flavin Reductases; Region: FlaRed; cl00801 391165001129 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 391165001130 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 391165001131 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 391165001132 protein binding site [polypeptide binding]; other site 391165001133 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 391165001134 protein binding site [polypeptide binding]; other site 391165001135 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 391165001136 Transcriptional regulator [Transcription]; Region: LysR; COG0583 391165001137 Helix-turn-helix domains; Region: HTH; cl00088 391165001138 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 391165001139 dimerization interface [polypeptide binding]; other site 391165001140 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 391165001141 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 391165001142 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 391165001143 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 391165001144 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 391165001145 Coenzyme A binding pocket [chemical binding]; other site 391165001146 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 391165001147 CPxP motif; other site 391165001148 Predicted transcriptional regulator [Transcription]; Region: COG4957 391165001149 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 391165001150 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 391165001151 metal binding site 2 [ion binding]; metal-binding site 391165001152 putative DNA binding helix; other site 391165001153 metal binding site 1 [ion binding]; metal-binding site 391165001154 dimer interface [polypeptide binding]; other site 391165001155 structural Zn2+ binding site [ion binding]; other site 391165001156 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 391165001157 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 391165001158 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 391165001159 putative active site [active] 391165001160 catalytic triad [active] 391165001161 putative dimer interface [polypeptide binding]; other site 391165001162 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 391165001163 non-specific DNA binding site [nucleotide binding]; other site 391165001164 salt bridge; other site 391165001165 sequence-specific DNA binding site [nucleotide binding]; other site 391165001166 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 391165001167 Hpr binding site; other site 391165001168 active site 391165001169 homohexamer subunit interaction site [polypeptide binding]; other site 391165001170 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 391165001171 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 391165001172 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; cd00006 391165001173 active pocket/dimerization site; other site 391165001174 active site 391165001175 phosphorylation site [posttranslational modification] 391165001176 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 391165001177 dimerization domain swap beta strand [polypeptide binding]; other site 391165001178 regulatory protein interface [polypeptide binding]; other site 391165001179 active site 391165001180 regulatory phosphorylation site [posttranslational modification]; other site 391165001181 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 391165001182 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 391165001183 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 391165001184 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 391165001185 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular adenosine...; Region: adenosine_kinase; cd01168 391165001186 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 391165001187 substrate binding site [chemical binding]; other site 391165001188 ATP binding site [chemical binding]; other site 391165001189 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 391165001190 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 391165001191 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 391165001192 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 391165001193 aconitate hydratase; Validated; Region: PRK09277 391165001194 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 391165001195 substrate binding site [chemical binding]; other site 391165001196 ligand binding site [chemical binding]; other site 391165001197 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 391165001198 substrate binding site [chemical binding]; other site 391165001199 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 391165001200 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165001201 Walker A/P-loop; other site 391165001202 ATP binding site [chemical binding]; other site 391165001203 Q-loop/lid; other site 391165001204 ABC transporter signature motif; other site 391165001205 Walker B; other site 391165001206 D-loop; other site 391165001207 H-loop/switch region; other site 391165001208 CcmB protein; Region: CcmB; cl01016 391165001209 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 391165001210 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 391165001211 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 391165001212 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 391165001213 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 391165001214 active site 391165001215 P-loop; other site 391165001216 phosphorylation site [posttranslational modification] 391165001217 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 391165001218 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 391165001219 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 391165001220 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 391165001221 putative substrate binding site [chemical binding]; other site 391165001222 putative ATP binding site [chemical binding]; other site 391165001223 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 391165001224 active site 391165001225 phosphorylation site [posttranslational modification] 391165001226 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 391165001227 dimerization domain swap beta strand [polypeptide binding]; other site 391165001228 regulatory protein interface [polypeptide binding]; other site 391165001229 active site 391165001230 regulatory phosphorylation site [posttranslational modification]; other site 391165001231 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 391165001232 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 391165001233 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 391165001234 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 391165001235 Transcriptional regulators [Transcription]; Region: PurR; COG1609 391165001236 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 391165001237 DNA binding site [nucleotide binding] 391165001238 domain linker motif; other site 391165001239 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_4; cd06280 391165001240 putative dimerization interface [polypeptide binding]; other site 391165001241 putative ligand binding site [chemical binding]; other site 391165001242 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 391165001243 active site 391165001244 PII uridylyl-transferase; Provisional; Region: PRK05092 391165001245 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 391165001246 metal binding triad; other site 391165001247 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 391165001248 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 391165001249 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 391165001250 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 391165001251 MutS domain I; Region: MutS_I; pfam01624 391165001252 MutS domain II; Region: MutS_II; pfam05188 391165001253 MutS family domain IV; Region: MutS_IV; pfam05190 391165001254 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 391165001255 Walker A/P-loop; other site 391165001256 ATP binding site [chemical binding]; other site 391165001257 Q-loop/lid; other site 391165001258 ABC transporter signature motif; other site 391165001259 Walker B; other site 391165001260 D-loop; other site 391165001261 H-loop/switch region; other site 391165001262 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 391165001263 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 391165001264 active site 391165001265 catalytic site [active] 391165001266 tetramer interface [polypeptide binding]; other site 391165001267 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 391165001268 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 391165001269 nucleotide binding pocket [chemical binding]; other site 391165001270 K-X-D-G motif; other site 391165001271 catalytic site [active] 391165001272 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 391165001273 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 391165001274 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 391165001275 Dimer interface [polypeptide binding]; other site 391165001276 BRCT sequence motif; other site 391165001277 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 391165001278 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 391165001279 Walker A/P-loop; other site 391165001280 ATP binding site [chemical binding]; other site 391165001281 Q-loop/lid; other site 391165001282 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 391165001283 ABC transporter signature motif; other site 391165001284 Walker B; other site 391165001285 D-loop; other site 391165001286 H-loop/switch region; other site 391165001287 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 391165001288 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 391165001289 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 391165001290 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 391165001291 nucleotide binding site [chemical binding]; other site 391165001292 SulA interaction site; other site 391165001293 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 391165001294 Cell division protein FtsA; Region: FtsA; cl11496 391165001295 cell division protein FtsA; Region: ftsA; TIGR01174 391165001296 Cell division protein FtsA; Region: FtsA; cl11496 391165001297 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 391165001298 Cell division protein FtsQ; Region: FtsQ; pfam03799 391165001299 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 391165001300 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 391165001301 ATP-grasp domain; Region: ATP-grasp_4; cl03087 391165001302 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 391165001303 FAD binding domain; Region: FAD_binding_4; pfam01565 391165001304 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 391165001305 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 391165001306 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 391165001307 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 391165001308 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 391165001309 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 391165001310 active site 391165001311 homodimer interface [polypeptide binding]; other site 391165001312 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 391165001313 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 391165001314 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165001315 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 391165001316 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 391165001317 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 391165001318 Mg++ binding site [ion binding]; other site 391165001319 putative catalytic motif [active] 391165001320 putative substrate binding site [chemical binding]; other site 391165001321 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 391165001322 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 391165001323 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 391165001324 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 391165001325 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 391165001326 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 391165001327 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 391165001328 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 391165001329 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; cl16911 391165001330 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 391165001331 MraZ protein; Region: MraZ; pfam02381 391165001332 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 391165001333 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 391165001334 amidase catalytic site [active] 391165001335 Zn binding residues [ion binding]; other site 391165001336 substrate binding site [chemical binding]; other site 391165001337 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 391165001338 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 391165001339 putative metal binding site [ion binding]; other site 391165001340 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; cl02542 391165001341 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 391165001342 putative active site [active] 391165001343 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 391165001344 S-adenosylmethionine binding site [chemical binding]; other site 391165001345 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 391165001346 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 391165001347 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 391165001348 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 391165001349 FeS/SAM binding site; other site 391165001350 putative acyltransferase; Provisional; Region: PRK05790 391165001351 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 391165001352 dimer interface [polypeptide binding]; other site 391165001353 active site 391165001354 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 391165001355 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 391165001356 ligand binding site [chemical binding]; other site 391165001357 flexible hinge region; other site 391165001358 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 391165001359 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165001360 NAD(P) binding site [chemical binding]; other site 391165001361 active site 391165001362 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 391165001363 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 391165001364 putative glutathione S-transferase; Provisional; Region: PRK10357 391165001365 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 391165001366 putative C-terminal domain interface [polypeptide binding]; other site 391165001367 putative GSH binding site (G-site) [chemical binding]; other site 391165001368 putative dimer interface [polypeptide binding]; other site 391165001369 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 391165001370 dimer interface [polypeptide binding]; other site 391165001371 N-terminal domain interface [polypeptide binding]; other site 391165001372 putative substrate binding pocket (H-site) [chemical binding]; other site 391165001373 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 391165001374 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; cl16911 391165001375 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 391165001376 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 391165001377 nucleoside/Zn binding site; other site 391165001378 dimer interface [polypeptide binding]; other site 391165001379 catalytic motif [active] 391165001380 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 391165001381 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 391165001382 catalytic triad [active] 391165001383 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 391165001384 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 391165001385 RNA binding surface [nucleotide binding]; other site 391165001386 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 391165001387 active site 391165001388 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 391165001389 S-adenosylmethionine binding site [chemical binding]; other site 391165001390 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 391165001391 dimer interface [polypeptide binding]; other site 391165001392 putative tRNA-binding site [nucleotide binding]; other site 391165001393 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 391165001394 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 391165001395 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 391165001396 ATP binding site [chemical binding]; other site 391165001397 Mg2+ binding site [ion binding]; other site 391165001398 G-X-G motif; other site 391165001399 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 391165001400 ATP binding site [chemical binding]; other site 391165001401 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 391165001402 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 391165001403 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 391165001404 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 391165001405 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 391165001406 active site 391165001407 HIGH motif; other site 391165001408 nucleotide binding site [chemical binding]; other site 391165001409 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 391165001410 active site 391165001411 KMSKS motif; other site 391165001412 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 391165001413 tRNA binding surface [nucleotide binding]; other site 391165001414 anticodon binding site; other site 391165001415 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 391165001416 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 391165001417 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 391165001418 active site 391165001419 Riboflavin kinase; Region: Flavokinase; cl03312 391165001420 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_1; cd09606 391165001421 oligoendopeptidase, M3 family; Region: M3_not_pepF; TIGR02289 391165001422 active site 391165001423 Zn binding site [ion binding]; other site 391165001424 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 391165001425 active site 391165001426 amidophosphoribosyltransferase; Provisional; Region: PRK09123 391165001427 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 391165001428 active site 391165001429 tetramer interface [polypeptide binding]; other site 391165001430 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 391165001431 active site 391165001432 Colicin V production protein; Region: Colicin_V; cl00567 391165001433 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 391165001434 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 391165001435 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 391165001436 PhoU domain; Region: PhoU; pfam01895 391165001437 septum formation inhibitor; Reviewed; Region: minC; PRK05177 391165001438 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 391165001439 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 391165001440 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 391165001441 Switch I; other site 391165001442 Switch II; other site 391165001443 Septum formation topological specificity factor MinE; Region: MinE; cl00538 391165001444 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 391165001445 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 391165001446 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 391165001447 putative ADP-binding pocket [chemical binding]; other site 391165001448 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 391165001449 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 391165001450 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165001451 Walker A/P-loop; other site 391165001452 ATP binding site [chemical binding]; other site 391165001453 Q-loop/lid; other site 391165001454 ABC transporter signature motif; other site 391165001455 Walker B; other site 391165001456 D-loop; other site 391165001457 H-loop/switch region; other site 391165001458 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 391165001459 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 391165001460 active site 391165001461 catalytic residues [active] 391165001462 metal binding site [ion binding]; metal-binding site 391165001463 Helix-turn-helix domains; Region: HTH; cl00088 391165001464 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 391165001465 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 391165001466 OsmC-like protein; Region: OsmC; cl00767 391165001467 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 391165001468 tetramer interface [polypeptide binding]; other site 391165001469 active site 391165001470 Mg2+/Mn2+ binding site [ion binding]; other site 391165001471 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 391165001472 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 391165001473 non-specific DNA binding site [nucleotide binding]; other site 391165001474 salt bridge; other site 391165001475 sequence-specific DNA binding site [nucleotide binding]; other site 391165001476 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 391165001477 Domain of unknown function (DUF955); Region: DUF955; cl01076 391165001478 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 391165001479 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 391165001480 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 391165001481 [2Fe-2S] cluster binding site [ion binding]; other site 391165001482 OPT oligopeptide transporter protein; Region: OPT; cl14607 391165001483 OPT oligopeptide transporter protein; Region: OPT; cl14607 391165001484 probable methyltransferase; Region: TIGR03438 391165001485 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; cl16911 391165001486 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 391165001487 TIGR03440 family protein; Region: unchr_TIGR03440 391165001488 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 391165001489 Phosphopantetheine attachment site; Region: PP-binding; cl09936 391165001490 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165001491 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165001492 Cation efflux family; Region: Cation_efflux; cl00316 391165001493 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 391165001494 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 391165001495 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 391165001496 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 391165001497 catalytic residue [active] 391165001498 biotin synthase; Region: bioB; TIGR00433 391165001499 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 391165001500 FeS/SAM binding site; other site 391165001501 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 391165001502 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 391165001503 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 391165001504 inhibitor-cofactor binding pocket; inhibition site 391165001505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165001506 catalytic residue [active] 391165001507 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 391165001508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165001509 Mannosyl oligosaccharide glucosidase; Region: Glyco_hydro_63; pfam03200 391165001510 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 391165001511 tandem repeat interface [polypeptide binding]; other site 391165001512 oligomer interface [polypeptide binding]; other site 391165001513 active site residues [active] 391165001514 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 391165001515 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 391165001516 active site 391165001517 phosphorylation site [posttranslational modification] 391165001518 intermolecular recognition site; other site 391165001519 dimerization interface [polypeptide binding]; other site 391165001520 Helix-turn-helix domains; Region: HTH; cl00088 391165001521 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 391165001522 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 391165001523 dimer interface [polypeptide binding]; other site 391165001524 phosphorylation site [posttranslational modification] 391165001525 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 391165001526 ATP binding site [chemical binding]; other site 391165001527 Mg2+ binding site [ion binding]; other site 391165001528 G-X-G motif; other site 391165001529 SpoVR family protein; Provisional; Region: PRK11767 391165001530 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 391165001531 Uncharacterized conserved protein [Function unknown]; Region: COG2718 391165001532 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 391165001533 PrkA family serine protein kinase; Provisional; Region: PRK15455 391165001534 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165001535 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 391165001536 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 391165001537 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 391165001538 homodimer interface [polypeptide binding]; other site 391165001539 substrate-cofactor binding pocket; other site 391165001540 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165001541 catalytic residue [active] 391165001542 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; cl01155 391165001543 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 391165001544 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 391165001545 putative ribose interaction site [chemical binding]; other site 391165001546 putative ADP binding site [chemical binding]; other site 391165001547 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 391165001548 active site 391165001549 HIGH motif; other site 391165001550 nucleotide binding site [chemical binding]; other site 391165001551 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 391165001552 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 391165001553 S-adenosylmethionine binding site [chemical binding]; other site 391165001554 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 391165001555 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 391165001556 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 391165001557 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 391165001558 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 391165001559 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 391165001560 Uncharacterized conserved protein [Function unknown]; Region: COG2308 391165001561 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 391165001562 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; cl00980 391165001563 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 391165001564 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 391165001565 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 391165001566 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 391165001567 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 391165001568 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 391165001569 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 391165001570 ornithine decarboxylase; Provisional; Region: PRK13578 391165001571 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 391165001572 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 391165001573 catalytic residue [active] 391165001574 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 391165001575 Formaldehyde-activating enzyme (Fae); Region: Fae; cl00774 391165001576 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 391165001577 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 391165001578 Domain of unknown function (DUF336); Region: DUF336; cl01249 391165001579 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 391165001580 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 391165001581 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 391165001582 RNA binding surface [nucleotide binding]; other site 391165001583 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 391165001584 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 391165001585 G1 box; other site 391165001586 putative GEF interaction site [polypeptide binding]; other site 391165001587 GTP/Mg2+ binding site [chemical binding]; other site 391165001588 Switch I region; other site 391165001589 G2 box; other site 391165001590 G3 box; other site 391165001591 Switch II region; other site 391165001592 G4 box; other site 391165001593 G5 box; other site 391165001594 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 391165001595 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 391165001596 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 391165001597 Active Sites [active] 391165001598 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 391165001599 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 391165001600 active site 391165001601 catalytic tetrad [active] 391165001602 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 391165001603 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165001604 Gram-negative bacterial tonB protein; Region: TonB; cl10048 391165001605 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165001606 DEAD-like helicases superfamily; Region: DEXDc; smart00487 391165001607 ATP binding site [chemical binding]; other site 391165001608 putative Mg++ binding site [ion binding]; other site 391165001609 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 391165001610 nucleotide binding region [chemical binding]; other site 391165001611 ATP-binding site [chemical binding]; other site 391165001612 DbpA RNA binding domain; Region: DbpA; pfam03880 391165001613 manganese transport regulator MntR; Provisional; Region: PRK11050 391165001614 Helix-turn-helix domains; Region: HTH; cl00088 391165001615 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 391165001616 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 391165001617 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 391165001618 putative ADP-binding pocket [chemical binding]; other site 391165001619 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 391165001620 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 391165001621 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 391165001622 Walker A/P-loop; other site 391165001623 ATP binding site [chemical binding]; other site 391165001624 Q-loop/lid; other site 391165001625 ABC transporter signature motif; other site 391165001626 Walker B; other site 391165001627 D-loop; other site 391165001628 H-loop/switch region; other site 391165001629 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 391165001630 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 391165001631 dimer interface [polypeptide binding]; other site 391165001632 conserved gate region; other site 391165001633 putative PBP binding loops; other site 391165001634 ABC-ATPase subunit interface; other site 391165001635 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165001636 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 391165001637 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 391165001638 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 391165001639 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 391165001640 23S rRNA interface [nucleotide binding]; other site 391165001641 L7/L12 interface [polypeptide binding]; other site 391165001642 putative thiostrepton binding site; other site 391165001643 L25 interface [polypeptide binding]; other site 391165001644 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 391165001645 mRNA/rRNA interface [nucleotide binding]; other site 391165001646 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 391165001647 23S rRNA interface [nucleotide binding]; other site 391165001648 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 391165001649 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 391165001650 L11 interface [polypeptide binding]; other site 391165001651 putative EF-Tu interaction site [polypeptide binding]; other site 391165001652 putative EF-G interaction site [polypeptide binding]; other site 391165001653 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 391165001654 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 391165001655 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 391165001656 RPB12 interaction site [polypeptide binding]; other site 391165001657 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl04593 391165001658 RPB11 interaction site [polypeptide binding]; other site 391165001659 RPB12 interaction site [polypeptide binding]; other site 391165001660 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 391165001661 RPB1 interaction site [polypeptide binding]; other site 391165001662 RPB11 interaction site [polypeptide binding]; other site 391165001663 RPB10 interaction site [polypeptide binding]; other site 391165001664 RPB3 interaction site [polypeptide binding]; other site 391165001665 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 391165001666 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 391165001667 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 391165001668 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 391165001669 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 391165001670 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 391165001671 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 391165001672 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 391165001673 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 391165001674 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 391165001675 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 391165001676 DNA binding site [nucleotide binding] 391165001677 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 391165001678 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 391165001679 S17 interaction site [polypeptide binding]; other site 391165001680 S8 interaction site; other site 391165001681 16S rRNA interaction site [nucleotide binding]; other site 391165001682 streptomycin interaction site [chemical binding]; other site 391165001683 23S rRNA interaction site [nucleotide binding]; other site 391165001684 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 391165001685 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 391165001686 elongation factor Tu; Reviewed; Region: PRK00049 391165001687 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 391165001688 G1 box; other site 391165001689 GEF interaction site [polypeptide binding]; other site 391165001690 GTP/Mg2+ binding site [chemical binding]; other site 391165001691 Switch I region; other site 391165001692 G2 box; other site 391165001693 G3 box; other site 391165001694 Switch II region; other site 391165001695 G4 box; other site 391165001696 G5 box; other site 391165001697 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 391165001698 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 391165001699 Antibiotic Binding Site [chemical binding]; other site 391165001700 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 391165001701 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 391165001702 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 391165001703 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 391165001704 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 391165001705 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 391165001706 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 391165001707 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 391165001708 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 391165001709 putative translocon binding site; other site 391165001710 protein-rRNA interface [nucleotide binding]; other site 391165001711 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 391165001712 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 391165001713 G-X-X-G motif; other site 391165001714 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 391165001715 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 391165001716 5S rRNA interface [nucleotide binding]; other site 391165001717 23S rRNA interface [nucleotide binding]; other site 391165001718 putative antibiotic binding site [chemical binding]; other site 391165001719 L25 interface [polypeptide binding]; other site 391165001720 L27 interface [polypeptide binding]; other site 391165001721 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 391165001722 23S rRNA interface [nucleotide binding]; other site 391165001723 putative translocon interaction site; other site 391165001724 signal recognition particle (SRP54) interaction site; other site 391165001725 L23 interface [polypeptide binding]; other site 391165001726 trigger factor interaction site; other site 391165001727 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 391165001728 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 391165001729 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 391165001730 KOW motif; Region: KOW; cl00354 391165001731 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 391165001732 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 391165001733 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 391165001734 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 391165001735 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 391165001736 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 391165001737 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 391165001738 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 391165001739 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 391165001740 23S rRNA interface [nucleotide binding]; other site 391165001741 L21e interface [polypeptide binding]; other site 391165001742 5S rRNA interface [nucleotide binding]; other site 391165001743 L27 interface [polypeptide binding]; other site 391165001744 L5 interface [polypeptide binding]; other site 391165001745 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 391165001746 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 391165001747 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 391165001748 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 391165001749 23S rRNA binding site [nucleotide binding]; other site 391165001750 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 391165001751 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 391165001752 SecY translocase; Region: SecY; pfam00344 391165001753 adenylate kinase; Reviewed; Region: adk; PRK00279 391165001754 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 391165001755 AMP-binding site [chemical binding]; other site 391165001756 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 391165001757 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 391165001758 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 391165001759 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 391165001760 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 391165001761 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 391165001762 alphaNTD - beta interaction site [polypeptide binding]; other site 391165001763 alphaNTD homodimer interface [polypeptide binding]; other site 391165001764 alphaNTD - beta' interaction site [polypeptide binding]; other site 391165001765 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 391165001766 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 391165001767 Membrane transport protein; Region: Mem_trans; cl09117 391165001768 recombination factor protein RarA; Reviewed; Region: PRK13342 391165001769 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 391165001770 Walker A motif; other site 391165001771 ATP binding site [chemical binding]; other site 391165001772 Walker B motif; other site 391165001773 arginine finger; other site 391165001774 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 391165001775 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 391165001776 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 391165001777 RNA binding surface [nucleotide binding]; other site 391165001778 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 391165001779 active site 391165001780 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 391165001781 AsmA-like C-terminal region; Region: AsmA_2; cl15864 391165001782 ATP12 chaperone protein; Region: ATP12; cl02228 391165001783 Acylphosphatase; Region: Acylphosphatase; cl00551 391165001784 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 391165001785 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 391165001786 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 391165001787 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 391165001788 active site 391165001789 tetramer interface; other site 391165001790 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 391165001791 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 391165001792 active site 391165001793 substrate binding site [chemical binding]; other site 391165001794 metal binding site [ion binding]; metal-binding site 391165001795 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 391165001796 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 391165001797 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 391165001798 FeS/SAM binding site; other site 391165001799 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 391165001800 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 391165001801 S-adenosylmethionine binding site [chemical binding]; other site 391165001802 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 391165001803 non-specific DNA binding site [nucleotide binding]; other site 391165001804 salt bridge; other site 391165001805 sequence-specific DNA binding site [nucleotide binding]; other site 391165001806 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 391165001807 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 391165001808 active site 391165001809 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 391165001810 GSH binding site [chemical binding]; other site 391165001811 catalytic residues [active] 391165001812 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 391165001813 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 391165001814 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; cl16911 391165001815 aspartate kinase; Reviewed; Region: PRK06635 391165001816 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 391165001817 putative nucleotide binding site [chemical binding]; other site 391165001818 putative catalytic residues [active] 391165001819 putative Mg ion binding site [ion binding]; other site 391165001820 putative aspartate binding site [chemical binding]; other site 391165001821 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 391165001822 putative allosteric regulatory site; other site 391165001823 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 391165001824 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 391165001825 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 391165001826 FMN binding site [chemical binding]; other site 391165001827 substrate binding site [chemical binding]; other site 391165001828 putative catalytic residue [active] 391165001829 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 391165001830 GAF domain; Region: GAF; cl15785 391165001831 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 391165001832 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 391165001833 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 391165001834 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 391165001835 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 391165001836 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 391165001837 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 391165001838 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 391165001839 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 391165001840 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 391165001841 dimer interface [polypeptide binding]; other site 391165001842 motif 1; other site 391165001843 active site 391165001844 motif 2; other site 391165001845 motif 3; other site 391165001846 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 391165001847 anticodon binding site; other site 391165001848 peptide chain release factor 1; Validated; Region: prfA; PRK00591 391165001849 RF-1 domain; Region: RF-1; cl02875 391165001850 RF-1 domain; Region: RF-1; cl02875 391165001851 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 391165001852 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; cl16911 391165001853 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 391165001854 nudix motif; other site 391165001855 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 391165001856 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 391165001857 ATM1 is an ABC transporter that is expressed in the mitochondria. Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to...; Region: ABCC_ATM1_transporter; cd03253 391165001858 Walker A/P-loop; other site 391165001859 ATP binding site [chemical binding]; other site 391165001860 Q-loop/lid; other site 391165001861 ABC transporter signature motif; other site 391165001862 Walker B; other site 391165001863 D-loop; other site 391165001864 H-loop/switch region; other site 391165001865 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 391165001866 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 391165001867 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional; Region: PRK14021 391165001868 ADP binding site [chemical binding]; other site 391165001869 magnesium binding site [ion binding]; other site 391165001870 putative shikimate binding site; other site 391165001871 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 391165001872 active site 391165001873 dimer interface [polypeptide binding]; other site 391165001874 metal binding site [ion binding]; metal-binding site 391165001875 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 391165001876 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 391165001877 active site 391165001878 DNA binding site [nucleotide binding] 391165001879 Int/Topo IB signature motif; other site 391165001880 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 391165001881 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 391165001882 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 391165001883 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 391165001884 N-terminal plug; other site 391165001885 ligand-binding site [chemical binding]; other site 391165001886 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 391165001887 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 391165001888 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165001889 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 391165001890 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 391165001891 nucleotide binding region [chemical binding]; other site 391165001892 ATP-binding site [chemical binding]; other site 391165001893 SEC-C motif; Region: SEC-C; pfam02810 391165001894 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 391165001895 PPIC-type PPIASE domain; Region: Rotamase; cl08278 391165001896 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 391165001897 heterotetramer interface [polypeptide binding]; other site 391165001898 active site pocket [active] 391165001899 cleavage site 391165001900 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 391165001901 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 391165001902 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 391165001903 active site 391165001904 8-oxo-dGMP binding site [chemical binding]; other site 391165001905 nudix motif; other site 391165001906 metal binding site [ion binding]; metal-binding site 391165001907 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 391165001908 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 391165001909 putative MPT binding site; other site 391165001910 AIDA autotransporter-like protein ShdA; Provisional; Region: PRK15319 391165001911 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 391165001912 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 391165001913 HSP70 interaction site [polypeptide binding]; other site 391165001914 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 391165001915 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 391165001916 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165001917 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 391165001918 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 391165001919 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 391165001920 metal ion-dependent adhesion site (MIDAS); other site 391165001921 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 391165001922 putative active site [active] 391165001923 Zn binding site [ion binding]; other site 391165001924 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 391165001925 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 391165001926 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 391165001927 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 391165001928 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 391165001929 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 391165001930 Quinolinate synthetase A protein; Region: NadA; cl00420 391165001931 L-aspartate oxidase; Provisional; Region: PRK07512 391165001932 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165001933 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 391165001934 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 391165001935 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 391165001936 dimerization interface [polypeptide binding]; other site 391165001937 active site 391165001938 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 391165001939 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 391165001940 active site 391165001941 dimer interface [polypeptide binding]; other site 391165001942 non-prolyl cis peptide bond; other site 391165001943 insertion regions; other site 391165001944 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 391165001945 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 391165001946 Flavin binding site [chemical binding]; other site 391165001947 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 391165001948 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165001949 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 391165001950 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 391165001951 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 391165001952 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 391165001953 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 391165001954 putative ADP-binding pocket [chemical binding]; other site 391165001955 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 391165001956 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 391165001957 Trp docking motif [polypeptide binding]; other site 391165001958 dimer interface [polypeptide binding]; other site 391165001959 active site 391165001960 small subunit binding site [polypeptide binding]; other site 391165001961 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 391165001962 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 391165001963 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165001964 homodimer interface [polypeptide binding]; other site 391165001965 catalytic residue [active] 391165001966 CobD/Cbib protein; Region: CobD_Cbib; cl00561 391165001967 cobyric acid synthase; Provisional; Region: PRK00784 391165001968 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165001969 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 391165001970 catalytic triad [active] 391165001971 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165001972 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 391165001973 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 391165001974 homodimer interface [polypeptide binding]; other site 391165001975 Walker A motif; other site 391165001976 ATP binding site [chemical binding]; other site 391165001977 hydroxycobalamin binding site [chemical binding]; other site 391165001978 Walker B motif; other site 391165001979 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 391165001980 homotrimer interface [polypeptide binding]; other site 391165001981 Walker A motif; other site 391165001982 GTP binding site [chemical binding]; other site 391165001983 Walker B motif; other site 391165001984 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 391165001985 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165001986 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 391165001987 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 391165001988 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 391165001989 precorrin-3B synthase; Region: CobG; TIGR02435 391165001990 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 391165001991 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 391165001992 Precorrin-8X methylmutase; Region: CbiC; pfam02570 391165001993 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 391165001994 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 391165001995 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 391165001996 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 391165001997 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 391165001998 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 391165001999 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; cl16911 391165002000 Cobalamin synthesis G C-terminus; Region: CbiG_C; cl12133 391165002001 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 391165002002 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 391165002003 CbiD; Region: CbiD; cl00828 391165002004 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 391165002005 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 391165002006 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 391165002007 iron-sulfur cluster [ion binding]; other site 391165002008 [2Fe-2S] cluster binding site [ion binding]; other site 391165002009 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 391165002010 hydrophobic ligand binding site; other site 391165002011 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 391165002012 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 391165002013 putative dimer interface [polypeptide binding]; other site 391165002014 active site pocket [active] 391165002015 putative cataytic base [active] 391165002016 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 391165002017 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 391165002018 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 391165002019 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 391165002020 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 391165002021 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 391165002022 N-acetyl-D-glucosamine binding site [chemical binding]; other site 391165002023 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 391165002024 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 391165002025 aminopeptidase N; Provisional; Region: pepN; PRK14015 391165002026 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 391165002027 active site 391165002028 Zn binding site [ion binding]; other site 391165002029 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 391165002030 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 391165002031 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 391165002032 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 391165002033 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 391165002034 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 391165002035 dimer interface [polypeptide binding]; other site 391165002036 decamer (pentamer of dimers) interface [polypeptide binding]; other site 391165002037 catalytic triad [active] 391165002038 peroxidatic and resolving cysteines [active] 391165002039 Transcriptional regulator [Transcription]; Region: LysR; COG0583 391165002040 Helix-turn-helix domains; Region: HTH; cl00088 391165002041 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 391165002042 dimerization interface [polypeptide binding]; other site 391165002043 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 391165002044 TPR motif; other site 391165002045 binding surface 391165002046 ADP-heptose:LPS heptosyltransferase II; Provisional; Region: PRK10916; cl15782 391165002047 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 391165002048 IHF dimer interface [polypeptide binding]; other site 391165002049 IHF - DNA interface [nucleotide binding]; other site 391165002050 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 391165002051 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 391165002052 Mg2+ binding site [ion binding]; other site 391165002053 G-X-G motif; other site 391165002054 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 391165002055 anchoring element; other site 391165002056 dimer interface [polypeptide binding]; other site 391165002057 ATP binding site [chemical binding]; other site 391165002058 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 391165002059 active site 391165002060 putative metal-binding site [ion binding]; other site 391165002061 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 391165002062 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 391165002063 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 391165002064 dimerization interface [polypeptide binding]; other site 391165002065 DPS ferroxidase diiron center [ion binding]; other site 391165002066 ion pore; other site 391165002067 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 391165002068 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 391165002069 trimer interface [polypeptide binding]; other site 391165002070 active site 391165002071 substrate binding site [chemical binding]; other site 391165002072 CoA binding site [chemical binding]; other site 391165002073 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 391165002074 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 391165002075 metal binding site [ion binding]; metal-binding site 391165002076 dimer interface [polypeptide binding]; other site 391165002077 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 391165002078 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 391165002079 dimerization interface 3.5A [polypeptide binding]; other site 391165002080 active site 391165002081 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 391165002082 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 391165002083 putative active site [active] 391165002084 substrate binding site [chemical binding]; other site 391165002085 putative cosubstrate binding site; other site 391165002086 catalytic site [active] 391165002087 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 391165002088 substrate binding site [chemical binding]; other site 391165002089 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 391165002090 active site 391165002091 catalytic residues [active] 391165002092 metal binding site [ion binding]; metal-binding site 391165002093 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 391165002094 putative dimer interface [polypeptide binding]; other site 391165002095 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 391165002096 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 391165002097 30S subunit binding site; other site 391165002098 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 391165002099 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 391165002100 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 391165002101 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 391165002102 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 391165002103 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 391165002104 Walker A/P-loop; other site 391165002105 ATP binding site [chemical binding]; other site 391165002106 Q-loop/lid; other site 391165002107 ABC transporter signature motif; other site 391165002108 Walker B; other site 391165002109 D-loop; other site 391165002110 H-loop/switch region; other site 391165002111 OstA-like protein; Region: OstA; cl00844 391165002112 OstA-like protein; Region: OstA; cl00844 391165002113 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 391165002114 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 391165002115 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 391165002116 putative active site [active] 391165002117 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 391165002118 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 391165002119 catalytic site [active] 391165002120 putative active site [active] 391165002121 putative substrate binding site [chemical binding]; other site 391165002122 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 391165002123 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 391165002124 putative NAD(P) binding site [chemical binding]; other site 391165002125 active site 391165002126 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 391165002127 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 391165002128 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 391165002129 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 391165002130 active site 391165002131 dimer interface [polypeptide binding]; other site 391165002132 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 391165002133 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 391165002134 active site 391165002135 FMN binding site [chemical binding]; other site 391165002136 substrate binding site [chemical binding]; other site 391165002137 3Fe-4S cluster binding site [ion binding]; other site 391165002138 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 391165002139 domain interface; other site 391165002140 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 391165002141 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 391165002142 C-terminal domain interface [polypeptide binding]; other site 391165002143 GSH binding site (G-site) [chemical binding]; other site 391165002144 dimer interface [polypeptide binding]; other site 391165002145 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 391165002146 N-terminal domain interface [polypeptide binding]; other site 391165002147 dimer interface [polypeptide binding]; other site 391165002148 substrate binding pocket (H-site) [chemical binding]; other site 391165002149 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 391165002150 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 391165002151 binding surface 391165002152 TPR motif; other site 391165002153 TPR repeat; Region: TPR_11; pfam13414 391165002154 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 391165002155 NADH(P)-binding; Region: NAD_binding_10; pfam13460 391165002156 putative NAD(P) binding site [chemical binding]; other site 391165002157 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 391165002158 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 391165002159 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 391165002160 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 391165002161 active site 391165002162 HIGH motif; other site 391165002163 nucleotide binding site [chemical binding]; other site 391165002164 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 391165002165 active site 391165002166 KMSKS motif; other site 391165002167 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 391165002168 Predicted esterase [General function prediction only]; Region: COG0400 391165002169 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 391165002170 active site 391165002171 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 391165002172 Cytochrome c; Region: Cytochrom_C; cl11414 391165002173 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 391165002174 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 391165002175 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 391165002176 diiron binding motif [ion binding]; other site 391165002177 aspartate aminotransferase; Provisional; Region: PRK05764 391165002178 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 391165002179 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165002180 homodimer interface [polypeptide binding]; other site 391165002181 catalytic residue [active] 391165002182 aspartate aminotransferase; Provisional; Region: PRK05764 391165002183 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 391165002184 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165002185 homodimer interface [polypeptide binding]; other site 391165002186 catalytic residue [active] 391165002187 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 391165002188 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 391165002189 Ligand binding site; other site 391165002190 Putative Catalytic site; other site 391165002191 DXD motif; other site 391165002192 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 391165002193 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 391165002194 catalytic residue [active] 391165002195 Helix-turn-helix domains; Region: HTH; cl00088 391165002196 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 391165002197 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 391165002198 putative effector binding pocket; other site 391165002199 dimerization interface [polypeptide binding]; other site 391165002200 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 391165002201 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 391165002202 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 391165002203 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 391165002204 putative DNA binding site [nucleotide binding]; other site 391165002205 putative Zn2+ binding site [ion binding]; other site 391165002206 AsnC family; Region: AsnC_trans_reg; pfam01037 391165002207 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 391165002208 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 391165002209 Ribonuclease P; Region: Ribonuclease_P; cl00457 391165002210 Haemolytic domain; Region: Haemolytic; cl00506 391165002211 membrane protein insertase; Provisional; Region: PRK01318 391165002212 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 391165002213 Predicted GTPase [General function prediction only]; Region: COG0218 391165002214 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 391165002215 G1 box; other site 391165002216 GTP/Mg2+ binding site [chemical binding]; other site 391165002217 Switch I region; other site 391165002218 G2 box; other site 391165002219 G3 box; other site 391165002220 Switch II region; other site 391165002221 G4 box; other site 391165002222 G5 box; other site 391165002223 Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar1_1; cd09127 391165002224 PLD-like domain; Region: PLDc_2; pfam13091 391165002225 putative active site [active] 391165002226 putative catalytic site [active] 391165002227 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar1_2; cd09128 391165002228 PLD-like domain; Region: PLDc_2; pfam13091 391165002229 putative active site [active] 391165002230 putative catalytic site [active] 391165002231 Chromate transporter; Region: Chromate_transp; pfam02417 391165002232 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 391165002233 Chromate transporter; Region: Chromate_transp; pfam02417 391165002234 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 391165002235 feedback inhibition sensing region; other site 391165002236 homohexameric interface [polypeptide binding]; other site 391165002237 nucleotide binding site [chemical binding]; other site 391165002238 N-acetyl-L-glutamate binding site [chemical binding]; other site 391165002239 siroheme synthase; Provisional; Region: cysG; PRK10637 391165002240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165002241 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 391165002242 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 391165002243 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 391165002244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165002245 NAD(P) binding site [chemical binding]; other site 391165002246 active site 391165002247 osmolarity response regulator; Provisional; Region: ompR; PRK09468 391165002248 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 391165002249 active site 391165002250 phosphorylation site [posttranslational modification] 391165002251 intermolecular recognition site; other site 391165002252 dimerization interface [polypeptide binding]; other site 391165002253 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 391165002254 DNA binding site [nucleotide binding] 391165002255 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 391165002256 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 391165002257 dimer interface [polypeptide binding]; other site 391165002258 phosphorylation site [posttranslational modification] 391165002259 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 391165002260 ATP binding site [chemical binding]; other site 391165002261 Mg2+ binding site [ion binding]; other site 391165002262 G-X-G motif; other site 391165002263 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 391165002264 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 391165002265 homodimer interface [polypeptide binding]; other site 391165002266 substrate-cofactor binding pocket; other site 391165002267 catalytic residue [active] 391165002268 OpgC protein; Region: OpgC_C; cl00792 391165002269 Acyltransferase family; Region: Acyl_transf_3; pfam01757 391165002270 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 391165002271 S-adenosylmethionine binding site [chemical binding]; other site 391165002272 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 391165002273 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 391165002274 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 391165002275 active site 391165002276 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 391165002277 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 391165002278 Probable Catalytic site; other site 391165002279 metal-binding site 391165002280 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 391165002281 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 391165002282 active site 391165002283 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 391165002284 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 391165002285 Probable Catalytic site; other site 391165002286 metal-binding site 391165002287 ABC transporter ATPase component; Reviewed; Region: PRK11147 391165002288 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 391165002289 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 391165002290 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 391165002291 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 391165002292 active site 391165002293 homotetramer interface [polypeptide binding]; other site 391165002294 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 391165002295 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 391165002296 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 391165002297 active site 391165002298 catalytic site [active] 391165002299 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 391165002300 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 391165002301 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 391165002302 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 391165002303 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 391165002304 catalytic site [active] 391165002305 active site 391165002306 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 391165002307 glycogen branching enzyme; Provisional; Region: PRK05402 391165002308 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 391165002309 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 391165002310 active site 391165002311 catalytic site [active] 391165002312 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 391165002313 trehalose synthase; Region: treS_nterm; TIGR02456 391165002314 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 391165002315 active site 391165002316 catalytic site [active] 391165002317 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 391165002318 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 391165002319 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 391165002320 active site 391165002321 homodimer interface [polypeptide binding]; other site 391165002322 catalytic site [active] 391165002323 acceptor binding site [chemical binding]; other site 391165002324 two-component response regulator; Provisional; Region: PRK09191 391165002325 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 391165002326 active site 391165002327 phosphorylation site [posttranslational modification] 391165002328 intermolecular recognition site; other site 391165002329 dimerization interface [polypeptide binding]; other site 391165002330 RNA polymerase sigma factor; Provisional; Region: PRK12547 391165002331 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 391165002332 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 391165002333 RNA polymerase sigma factor; Provisional; Region: PRK12546 391165002334 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 391165002335 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 391165002336 DNA binding residues [nucleotide binding] 391165002337 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 391165002338 Histidine kinase; Region: HisKA_2; cl06527 391165002339 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 391165002340 ATP binding site [chemical binding]; other site 391165002341 Mg2+ binding site [ion binding]; other site 391165002342 G-X-G motif; other site 391165002343 Pantoate-beta-alanine ligase; Region: PanC; cd00560 391165002344 pantoate--beta-alanine ligase; Region: panC; TIGR00018 391165002345 active site 391165002346 ATP-binding site [chemical binding]; other site 391165002347 pantoate-binding site; other site 391165002348 HXXH motif; other site 391165002349 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 391165002350 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 391165002351 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 391165002352 oxo-acid-lyase/anthranilate synthase; Region: PLN02889 391165002353 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 391165002354 glutamine binding [chemical binding]; other site 391165002355 catalytic triad [active] 391165002356 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 391165002357 chorismate binding enzyme; Region: Chorismate_bind; cl10555 391165002358 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 391165002359 homodimer interface [polypeptide binding]; other site 391165002360 substrate-cofactor binding pocket; other site 391165002361 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165002362 catalytic residue [active] 391165002363 Protein of unknown function (DUF556); Region: DUF556; cl00822 391165002364 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 391165002365 active site 391165002366 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 391165002367 nucleotide binding site [chemical binding]; other site 391165002368 substrate binding site [chemical binding]; other site 391165002369 Archaeal flavoproteins [Energy production and conversion]; Region: COG1036 391165002370 Flavoprotein; Region: Flavoprotein; cl08021 391165002371 dihydropteroate synthase-related protein; Region: TIGR00284 391165002372 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 391165002373 substrate binding pocket [chemical binding]; other site 391165002374 dimer interface [polypeptide binding]; other site 391165002375 inhibitor binding site; inhibition site 391165002376 Domain of unknown function (DUF4346); Region: DUF4346; pfam14251 391165002377 Flavin Reductases; Region: FlaRed; cl00801 391165002378 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 391165002379 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an...; Region: HisA_HisF; cd04723 391165002380 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 391165002381 active site 391165002382 Formaldehyde-activating enzyme (Fae); Region: Fae; cl00774 391165002383 ATP:dephospho-CoA triphosphoribosyl transferase; Region: CitG; cl00768 391165002384 ATP-grasp domain; Region: ATP-grasp_4; cl03087 391165002385 N(5),N(10)-methenyltetrahydromethanopterin cyclohydrolase; Provisional; Region: PRK02264 391165002386 Methenyltetrahydromethanopterin (methenyl-H4MPT) cyclohydrolase (MCH). MCH is a cytoplasmic enzyme that has been identified in methanogenic archaea, sulfate- reducing archaea, and methylotrophic bacteria. It catalyzes the reversible formation of N(5), N...; Region: MCH; cd00545 391165002387 trimer interface I [polypeptide binding]; other site 391165002388 putative substrate binding pocket [chemical binding]; other site 391165002389 trimer interface II [polypeptide binding]; other site 391165002390 Predicted ATP-dependent carboligase related to biotin carboxylase [General function prediction only]; Region: COG2232 391165002391 ATP-grasp domain; Region: ATP-grasp_4; cl03087 391165002392 Methylene-tetrahydromethanopterin dehydrogenase, N-terminal; Region: Mpt_N; pfam09176 391165002393 NADP binding domain of methylene tetrahydromethanopterin dehydrogenase; Region: NAD_bind_H4MPT_DH; cd01078 391165002394 NADP binding site [chemical binding]; other site 391165002395 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; pfam01118 391165002396 Predicted archaeal sugar kinases [General function prediction only]; Region: COG1907 391165002397 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 391165002398 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 391165002399 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 391165002400 aromatic arch; other site 391165002401 DCoH dimer interaction site [polypeptide binding]; other site 391165002402 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 391165002403 DCoH tetramer interaction site [polypeptide binding]; other site 391165002404 substrate binding site [chemical binding]; other site 391165002405 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 391165002406 molybdopterin cofactor binding site; other site 391165002407 formylmethanofuran dehydrogenase subunit A; Region: one_C_dehyd_A; TIGR03121 391165002408 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 391165002409 active site 391165002410 formylmethanofuran--tetrahydromethanopterin formyltransferase; Provisional; Region: PRK02114 391165002411 Formylmethanofuran-tetrahydromethanopterin formyltransferase; Region: FTR; pfam01913 391165002412 FTR, proximal lobe; Region: FTR_C; pfam02741 391165002413 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 391165002414 domain_subunit interface; other site 391165002415 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 391165002416 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 391165002417 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 391165002418 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 391165002419 THF binding site; other site 391165002420 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 391165002421 substrate binding site [chemical binding]; other site 391165002422 THF binding site; other site 391165002423 zinc-binding site [ion binding]; other site 391165002424 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 391165002425 L-lactate permease; Region: Lactate_perm; cl00701 391165002426 glycolate transporter; Provisional; Region: PRK09695 391165002427 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 391165002428 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 391165002429 active site 391165002430 catalytic tetrad [active] 391165002431 HI0933-like protein; Region: HI0933_like; pfam03486 391165002432 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165002433 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 391165002434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165002435 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 391165002436 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 391165002437 AMP-binding enzyme; Region: AMP-binding; cl15778 391165002438 AMP-binding enzyme; Region: AMP-binding; cl15778 391165002439 oxalate/formate antiporter; Region: oxa_formateAnti; TIGR04259 391165002440 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 391165002441 putative substrate translocation pore; other site 391165002442 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 391165002443 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 391165002444 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 391165002445 catalytic loop [active] 391165002446 iron binding site [ion binding]; other site 391165002447 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 391165002448 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 391165002449 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 391165002450 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 391165002451 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 391165002452 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 391165002453 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 391165002454 Cytochrome c; Region: Cytochrom_C; cl11414 391165002455 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 391165002456 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 391165002457 active site 391165002458 catalytic residues [active] 391165002459 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 391165002460 AsmA-like C-terminal region; Region: AsmA_2; cl15864 391165002461 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 391165002462 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 391165002463 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 391165002464 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 391165002465 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 391165002466 C-terminal domain interface [polypeptide binding]; other site 391165002467 GSH binding site (G-site) [chemical binding]; other site 391165002468 dimer interface [polypeptide binding]; other site 391165002469 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 391165002470 N-terminal domain interface [polypeptide binding]; other site 391165002471 dimer interface [polypeptide binding]; other site 391165002472 substrate binding pocket (H-site) [chemical binding]; other site 391165002473 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 391165002474 S-adenosylmethionine binding site [chemical binding]; other site 391165002475 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 391165002476 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 391165002477 protein binding site [polypeptide binding]; other site 391165002478 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 391165002479 Catalytic dyad [active] 391165002480 ribonuclease R; Region: RNase_R; TIGR02063 391165002481 RNB domain; Region: RNB; pfam00773 391165002482 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 play an important...; Region: S1_RNase_R; cd04471 391165002483 RNA binding site [nucleotide binding]; other site 391165002484 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 391165002485 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 391165002486 active site 391165002487 interdomain interaction site; other site 391165002488 putative metal-binding site [ion binding]; other site 391165002489 nucleotide binding site [chemical binding]; other site 391165002490 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 391165002491 domain I; other site 391165002492 DNA binding groove [nucleotide binding] 391165002493 phosphate binding site [ion binding]; other site 391165002494 domain II; other site 391165002495 domain III; other site 391165002496 nucleotide binding site [chemical binding]; other site 391165002497 catalytic site [active] 391165002498 domain IV; other site 391165002499 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 391165002500 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 391165002501 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 391165002502 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 391165002503 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 391165002504 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 391165002505 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 391165002506 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 391165002507 dihydroorotase; Validated; Region: pyrC; PRK09357 391165002508 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 391165002509 active site 391165002510 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 391165002511 catalytic triad [active] 391165002512 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 391165002513 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 391165002514 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165002515 transcriptional regulator; Provisional; Region: PRK10632 391165002516 Helix-turn-helix domains; Region: HTH; cl00088 391165002517 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 391165002518 putative effector binding pocket; other site 391165002519 dimerization interface [polypeptide binding]; other site 391165002520 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; cl16911 391165002521 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 391165002522 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 391165002523 putative molybdopterin cofactor binding site [chemical binding]; other site 391165002524 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 391165002525 putative molybdopterin cofactor binding site; other site 391165002526 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 391165002527 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 391165002528 HIGH motif; other site 391165002529 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 391165002530 active site 391165002531 KMSKS motif; other site 391165002532 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 391165002533 Competence protein; Region: Competence; cl00471 391165002534 LexA repressor; Validated; Region: PRK00215 391165002535 Helix-turn-helix domains; Region: HTH; cl00088 391165002536 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 391165002537 Catalytic site [active] 391165002538 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 391165002539 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 391165002540 dimer interface [polypeptide binding]; other site 391165002541 putative functional site; other site 391165002542 putative MPT binding site; other site 391165002543 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 391165002544 trimer interface [polypeptide binding]; other site 391165002545 dimer interface [polypeptide binding]; other site 391165002546 putative active site [active] 391165002547 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 391165002548 active site 391165002549 ribulose/triose binding site [chemical binding]; other site 391165002550 phosphate binding site [ion binding]; other site 391165002551 substrate (anthranilate) binding pocket [chemical binding]; other site 391165002552 product (indole) binding pocket [chemical binding]; other site 391165002553 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 391165002554 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 391165002555 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 391165002556 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 391165002557 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 391165002558 glutamine binding [chemical binding]; other site 391165002559 catalytic triad [active] 391165002560 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 391165002561 binding surface 391165002562 TPR repeat; Region: TPR_11; pfam13414 391165002563 TPR motif; other site 391165002564 TPR repeat; Region: TPR_11; pfam13414 391165002565 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 391165002566 Tetratricopeptide repeat; Region: TPR_16; pfam13432 391165002567 TPR motif; other site 391165002568 binding surface 391165002569 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 391165002570 Protein of unknown function, DUF488; Region: DUF488; cl01246 391165002571 anthranilate synthase component I; Provisional; Region: PRK13573 391165002572 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 391165002573 chorismate binding enzyme; Region: Chorismate_bind; cl10555 391165002574 SurA N-terminal domain; Region: SurA_N_3; cl07813 391165002575 periplasmic folding chaperone; Provisional; Region: PRK10788 391165002576 PPIC-type PPIASE domain; Region: Rotamase; cl08278 391165002577 PPIC-type PPIASE domain; Region: Rotamase; cl08278 391165002578 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 391165002579 substrate binding site [chemical binding]; other site 391165002580 dimer interface [polypeptide binding]; other site 391165002581 catalytic triad [active] 391165002582 CTP synthetase; Validated; Region: pyrG; PRK05380 391165002583 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 391165002584 Catalytic site [active] 391165002585 active site 391165002586 UTP binding site [chemical binding]; other site 391165002587 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 391165002588 active site 391165002589 putative oxyanion hole; other site 391165002590 catalytic triad [active] 391165002591 NeuB family; Region: NeuB; cl00496 391165002592 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 391165002593 Creatinine amidohydrolase; Region: Creatininase; cl00618 391165002594 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 391165002595 ligand binding site [chemical binding]; other site 391165002596 Low molecular weight phosphatase family; Region: LMWPc; cd00115 391165002597 active site 391165002598 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 391165002599 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 391165002600 generic binding surface II; other site 391165002601 ssDNA binding site; other site 391165002602 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 391165002603 ATP binding site [chemical binding]; other site 391165002604 putative Mg++ binding site [ion binding]; other site 391165002605 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 391165002606 nucleotide binding region [chemical binding]; other site 391165002607 ATP-binding site [chemical binding]; other site 391165002608 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 391165002609 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 391165002610 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 391165002611 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 391165002612 ATP binding site [chemical binding]; other site 391165002613 putative Mg++ binding site [ion binding]; other site 391165002614 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 391165002615 nucleotide binding region [chemical binding]; other site 391165002616 ATP-binding site [chemical binding]; other site 391165002617 TRCF domain; Region: TRCF; cl04088 391165002618 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 391165002619 MOSC domain; Region: MOSC; pfam03473 391165002620 3-alpha domain; Region: 3-alpha; pfam03475 391165002621 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 391165002622 putative cation:proton antiport protein; Provisional; Region: PRK10669 391165002623 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 391165002624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165002625 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; cd01494 391165002626 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 391165002627 catalytic residue [active] 391165002628 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 391165002629 catalytic triad [active] 391165002630 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 391165002631 putative lipid kinase; Reviewed; Region: PRK13057 391165002632 Exopolysaccharide synthesis, ExoD; Region: ExoD; cl01617 391165002633 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 391165002634 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: HisRS-like_core; cd00773 391165002635 dimer interface [polypeptide binding]; other site 391165002636 motif 1; other site 391165002637 motif 2; other site 391165002638 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 391165002639 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 391165002640 GDP-binding site [chemical binding]; other site 391165002641 ACT binding site; other site 391165002642 IMP binding site; other site 391165002643 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 391165002644 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 391165002645 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 391165002646 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 391165002647 DNA binding residues [nucleotide binding] 391165002648 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 391165002649 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 391165002650 RNA binding surface [nucleotide binding]; other site 391165002651 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 391165002652 active site 391165002653 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 391165002654 putative active site [active] 391165002655 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 391165002656 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 391165002657 active site 391165002658 motif I; other site 391165002659 motif II; other site 391165002660 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 391165002661 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 391165002662 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 391165002663 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 391165002664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165002665 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 391165002666 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 391165002667 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 391165002668 putative active site [active] 391165002669 catalytic residue [active] 391165002670 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 391165002671 SIS_TAL_PGI: Transaldolase (TAL)/ Phosphoglucose isomerase (PGI). This group represents the SIS (Sugar ISomerase) PGI domain, of a multifunctional protein (TAL-PGI ) having both TAL and PGI activities. TAL_PGI contains an N-terminal TAL domain and a...; Region: SIS_TAL_PGI; cd05798 391165002672 transketolase; Reviewed; Region: PRK05899 391165002673 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 391165002674 TPP-binding site [chemical binding]; other site 391165002675 dimer interface [polypeptide binding]; other site 391165002676 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 391165002677 PYR/PP interface [polypeptide binding]; other site 391165002678 dimer interface [polypeptide binding]; other site 391165002679 TPP binding site [chemical binding]; other site 391165002680 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 391165002681 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 391165002682 tetramer (dimer of dimers) interface [polypeptide binding]; other site 391165002683 active site 391165002684 dimer interface [polypeptide binding]; other site 391165002685 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 391165002686 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 391165002687 ATP-binding site [chemical binding]; other site 391165002688 Gluconate-6-phosphate binding site [chemical binding]; other site 391165002689 Protein of unknown function (DUF461); Region: DUF461; cl01071 391165002690 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 391165002691 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 391165002692 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 391165002693 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 391165002694 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 391165002695 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 391165002696 Helix-turn-helix domains; Region: HTH; cl00088 391165002697 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 391165002698 putative DNA binding site [nucleotide binding]; other site 391165002699 putative Zn2+ binding site [ion binding]; other site 391165002700 peroxiredoxin; Provisional; Region: PRK13189 391165002701 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 391165002702 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 391165002703 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 391165002704 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 391165002705 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 391165002706 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 391165002707 PAF_acetylhydrolase (PAF-AH)_like subfamily of SGNH-hydrolases. Platelet-activating factor (PAF) and PAF-AH are key players in inflammation and in atherosclerosis. PAF-AH is a calcium independent phospholipase A2 which exhibits strong substrate...; Region: PAF_acetylesterase_like; cd01820 391165002708 active site 391165002709 catalytic triad [active] 391165002710 oxyanion hole [active] 391165002711 specificity pocket; other site 391165002712 Bacitracin resistance protein BacA; Region: BacA; cl00858 391165002713 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 391165002714 Domain of unknown function (DUF336); Region: DUF336; cl01249 391165002715 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 391165002716 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165002717 Walker A/P-loop; other site 391165002718 ATP binding site [chemical binding]; other site 391165002719 Q-loop/lid; other site 391165002720 ABC transporter signature motif; other site 391165002721 Walker B; other site 391165002722 D-loop; other site 391165002723 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 391165002724 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165002725 Walker A/P-loop; other site 391165002726 ATP binding site [chemical binding]; other site 391165002727 Q-loop/lid; other site 391165002728 ABC transporter signature motif; other site 391165002729 Walker B; other site 391165002730 D-loop; other site 391165002731 H-loop/switch region; other site 391165002732 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 391165002733 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 391165002734 Walker A/P-loop; other site 391165002735 ATP binding site [chemical binding]; other site 391165002736 Q-loop/lid; other site 391165002737 ABC transporter signature motif; other site 391165002738 Walker B; other site 391165002739 D-loop; other site 391165002740 H-loop/switch region; other site 391165002741 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 391165002742 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 391165002743 substrate binding pocket [chemical binding]; other site 391165002744 membrane-bound complex binding site; other site 391165002745 hinge residues; other site 391165002746 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 391165002747 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 391165002748 dimer interface [polypeptide binding]; other site 391165002749 conserved gate region; other site 391165002750 putative PBP binding loops; other site 391165002751 ABC-ATPase subunit interface; other site 391165002752 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 391165002753 ligand binding site [chemical binding]; other site 391165002754 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 391165002755 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 391165002756 ATP binding site [chemical binding]; other site 391165002757 putative Mg++ binding site [ion binding]; other site 391165002758 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 391165002759 nucleotide binding region [chemical binding]; other site 391165002760 ATP-binding site [chemical binding]; other site 391165002761 RQC domain; Region: RQC; cl09632 391165002762 HRDC domain; Region: HRDC; cl02578 391165002763 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 391165002764 Leucine carboxyl methyltransferase; Region: LCM; cl01306 391165002765 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 391165002766 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 391165002767 Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed...; Region: ABCD_peroxisomal_ALDP; cd03223 391165002768 Protein of unknown function (DUF3253); Region: DUF3253; pfam11625 391165002769 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 391165002770 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 391165002771 Cysteine-rich domain; Region: CCG; pfam02754 391165002772 Cysteine-rich domain; Region: CCG; pfam02754 391165002773 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 391165002774 Class I ribonucleotide reductase; Region: RNR_I; cd01679 391165002775 active site 391165002776 dimer interface [polypeptide binding]; other site 391165002777 catalytic residues [active] 391165002778 effector binding site; other site 391165002779 R2 peptide binding site; other site 391165002780 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 391165002781 dimer interface [polypeptide binding]; other site 391165002782 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 391165002783 putative radical transfer pathway; other site 391165002784 diiron center [ion binding]; other site 391165002785 tyrosyl radical; other site 391165002786 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 391165002787 Cu(I) binding site [ion binding]; other site 391165002788 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 391165002789 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 391165002790 S-adenosylmethionine binding site [chemical binding]; other site 391165002791 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 391165002792 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 391165002793 substrate binding pocket [chemical binding]; other site 391165002794 chain length determination region; other site 391165002795 substrate-Mg2+ binding site; other site 391165002796 catalytic residues [active] 391165002797 aspartate-rich region 1; other site 391165002798 active site lid residues [active] 391165002799 aspartate-rich region 2; other site 391165002800 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 391165002801 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 391165002802 active site 391165002803 Protein of unknown function (DUF2459); Region: DUF2459; cl09819 391165002804 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 391165002805 dimer interface [polypeptide binding]; other site 391165002806 Citrate synthase; Region: Citrate_synt; pfam00285 391165002807 active site 391165002808 citrylCoA binding site [chemical binding]; other site 391165002809 NADH binding [chemical binding]; other site 391165002810 cationic pore residues; other site 391165002811 oxalacetate/citrate binding site [chemical binding]; other site 391165002812 coenzyme A binding site [chemical binding]; other site 391165002813 catalytic triad [active] 391165002814 Staphylococcal nuclease homologues; Region: SNc; smart00318 391165002815 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 391165002816 Catalytic site; other site 391165002817 CHAD domain; Region: CHAD; cl10506 391165002818 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 391165002819 catalytic core [active] 391165002820 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 391165002821 active site 391165002822 metal binding site [ion binding]; metal-binding site 391165002823 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 391165002824 putative active site [active] 391165002825 putative metal binding site [ion binding]; other site 391165002826 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 391165002827 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 391165002828 ATP binding site [chemical binding]; other site 391165002829 putative Mg++ binding site [ion binding]; other site 391165002830 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 391165002831 nucleotide binding region [chemical binding]; other site 391165002832 ATP-binding site [chemical binding]; other site 391165002833 DEAD/H associated; Region: DEAD_assoc; pfam08494 391165002834 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 391165002835 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 391165002836 DNA ligase, ATP-dependent, PP_1105 family; Region: DNA_lig_bact; TIGR04120 391165002837 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 391165002838 active site 391165002839 DNA binding site [nucleotide binding] 391165002840 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 391165002841 DNA binding site [nucleotide binding] 391165002842 N-formylglutamate amidohydrolase; Region: FGase; cl01522 391165002843 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 391165002844 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 391165002845 dimer interface [polypeptide binding]; other site 391165002846 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165002847 catalytic residue [active] 391165002848 Rrf2 family protein; Region: rrf2_super; TIGR00738 391165002849 Helix-turn-helix domains; Region: HTH; cl00088 391165002850 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 391165002851 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 391165002852 dimer interface [polypeptide binding]; other site 391165002853 decamer (pentamer of dimers) interface [polypeptide binding]; other site 391165002854 catalytic triad [active] 391165002855 sulfite reductase subunit beta; Provisional; Region: PRK13504 391165002856 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 391165002857 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 391165002858 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 391165002859 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 391165002860 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 391165002861 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 391165002862 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 391165002863 dimer interface [polypeptide binding]; other site 391165002864 conserved gate region; other site 391165002865 putative PBP binding loops; other site 391165002866 ABC-ATPase subunit interface; other site 391165002867 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 391165002868 Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient. The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein...; Region: ABC_PstB_phosphate_transporter; cd03260 391165002869 Walker A/P-loop; other site 391165002870 ATP binding site [chemical binding]; other site 391165002871 Q-loop/lid; other site 391165002872 ABC transporter signature motif; other site 391165002873 Walker B; other site 391165002874 D-loop; other site 391165002875 H-loop/switch region; other site 391165002876 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 391165002877 PhoU domain; Region: PhoU; pfam01895 391165002878 PhoU domain; Region: PhoU; pfam01895 391165002879 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 391165002880 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 391165002881 active site 391165002882 phosphorylation site [posttranslational modification] 391165002883 intermolecular recognition site; other site 391165002884 dimerization interface [polypeptide binding]; other site 391165002885 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 391165002886 DNA binding site [nucleotide binding] 391165002887 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 391165002888 homotrimer interaction site [polypeptide binding]; other site 391165002889 putative active site [active] 391165002890 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 391165002891 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 391165002892 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 391165002893 active site 391165002894 catalytic site [active] 391165002895 NlpC/P60 family; Region: NLPC_P60; cl11438 391165002896 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_2; cd06150 391165002897 homotrimer interaction site [polypeptide binding]; other site 391165002898 putative active site [active] 391165002899 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 391165002900 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 391165002901 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 391165002902 XdhC Rossmann domain; Region: XdhC_C; pfam13478 391165002903 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 391165002904 putative MPT binding site; other site 391165002905 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 391165002906 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 391165002907 Ligand binding site; other site 391165002908 metal-binding site 391165002909 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 391165002910 transcriptional regulator; Provisional; Region: PRK10632 391165002911 Helix-turn-helix domains; Region: HTH; cl00088 391165002912 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 391165002913 putative effector binding pocket; other site 391165002914 putative dimerization interface [polypeptide binding]; other site 391165002915 short chain dehydrogenase; Provisional; Region: PRK12744 391165002916 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165002917 NAD(P) binding site [chemical binding]; other site 391165002918 active site 391165002919 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 391165002920 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 391165002921 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 391165002922 protein-L-isoaspartate O-methyltransferase; Provisional; Region: PRK13944 391165002923 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; cl16911 391165002924 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 391165002925 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 391165002926 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 391165002927 active site 391165002928 HIGH motif; other site 391165002929 nucleotide binding site [chemical binding]; other site 391165002930 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 391165002931 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 391165002932 active site 391165002933 KMSKS motif; other site 391165002934 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 391165002935 tRNA binding surface [nucleotide binding]; other site 391165002936 anticodon binding site; other site 391165002937 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 391165002938 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 391165002939 putative nucleotide binding site [chemical binding]; other site 391165002940 uridine monophosphate binding site [chemical binding]; other site 391165002941 homohexameric interface [polypeptide binding]; other site 391165002942 ribosome recycling factor; Reviewed; Region: frr; PRK00083 391165002943 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are 'recycled' and ready for another round of...; Region: RRF; cd00520 391165002944 hinge region; other site 391165002945 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 391165002946 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 391165002947 catalytic residue [active] 391165002948 putative FPP diphosphate binding site; other site 391165002949 putative FPP binding hydrophobic cleft; other site 391165002950 dimer interface [polypeptide binding]; other site 391165002951 putative IPP diphosphate binding site; other site 391165002952 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 391165002953 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 391165002954 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 391165002955 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 391165002956 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 391165002957 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 391165002958 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 391165002959 active site 391165002960 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 391165002961 protein binding site [polypeptide binding]; other site 391165002962 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 391165002963 putative substrate binding region [chemical binding]; other site 391165002964 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 391165002965 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 391165002966 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 391165002967 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 391165002968 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 391165002969 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 391165002970 Surface antigen; Region: Bac_surface_Ag; cl03097 391165002971 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 391165002972 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 391165002973 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 391165002974 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 391165002975 trimer interface [polypeptide binding]; other site 391165002976 active site 391165002977 UDP-GlcNAc binding site [chemical binding]; other site 391165002978 lipid binding site [chemical binding]; lipid-binding site 391165002979 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 391165002980 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 391165002981 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 391165002982 active site 391165002983 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 391165002984 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 391165002985 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 391165002986 dimer interface [polypeptide binding]; other site 391165002987 active site 391165002988 metal binding site [ion binding]; metal-binding site 391165002989 glutathione binding site [chemical binding]; other site 391165002990 YcjX-like family, DUF463; Region: DUF463; cl01193 391165002991 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 391165002992 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 391165002993 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 391165002994 Amidase; Region: Amidase; cl11426 391165002995 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 391165002996 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 391165002997 GatB domain; Region: GatB_Yqey; cl11497 391165002998 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 391165002999 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 391165003000 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 391165003001 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 391165003002 substrate binding pocket [chemical binding]; other site 391165003003 substrate-Mg2+ binding site; other site 391165003004 aspartate-rich region 2; other site 391165003005 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 391165003006 glutamine synthetase; Provisional; Region: glnA; PRK09469 391165003007 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 391165003008 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 391165003009 Nitrogen regulatory protein P-II; Region: P-II; cl00412 391165003010 Nitrogen regulatory protein P-II; Region: P-II; smart00938 391165003011 hypothetical protein; Provisional; Region: PRK08912 391165003012 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 391165003013 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165003014 homodimer interface [polypeptide binding]; other site 391165003015 catalytic residue [active] 391165003016 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 391165003017 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165003018 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 391165003019 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 391165003020 metal binding site [ion binding]; metal-binding site 391165003021 putative dimer interface [polypeptide binding]; other site 391165003022 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 391165003023 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165003024 NAD(P) binding site [chemical binding]; other site 391165003025 active site 391165003026 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 391165003027 23S rRNA interface [nucleotide binding]; other site 391165003028 L3 interface [polypeptide binding]; other site 391165003029 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 391165003030 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 391165003031 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165003032 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 391165003033 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 391165003034 trimer interface [polypeptide binding]; other site 391165003035 putative metal binding site [ion binding]; other site 391165003036 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 391165003037 cystathionine beta-lyase, bacterial; Region: cysta_beta_ly_B; TIGR01324 391165003038 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 391165003039 homodimer interface [polypeptide binding]; other site 391165003040 substrate-cofactor binding pocket; other site 391165003041 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165003042 catalytic residue [active] 391165003043 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 391165003044 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 391165003045 active site residue [active] 391165003046 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 391165003047 active site residue [active] 391165003048 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 391165003049 non-specific DNA binding site [nucleotide binding]; other site 391165003050 salt bridge; other site 391165003051 sequence-specific DNA binding site [nucleotide binding]; other site 391165003052 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 391165003053 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 391165003054 Metal-binding active site; metal-binding site 391165003055 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 391165003056 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 391165003057 Restriction endonuclease; Region: Mrr_cat; cl00516 391165003058 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 391165003059 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 391165003060 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 391165003061 Walker A motif; other site 391165003062 ATP binding site [chemical binding]; other site 391165003063 Walker B motif; other site 391165003064 arginine finger; other site 391165003065 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 391165003066 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 391165003067 Domain of unknown function DUF21; Region: DUF21; pfam01595 391165003068 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 391165003069 Transporter associated domain; Region: CorC_HlyC; cl08393 391165003070 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 391165003071 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 391165003072 catalytic residues [active] 391165003073 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 391165003074 glucokinase, proteobacterial type; Region: glk; TIGR00749 391165003075 High-affinity nickel-transport protein; Region: NicO; cl00964 391165003076 alkylphosphonate utilization operon protein PhnA; Region: phnA; TIGR00686 391165003077 PhnA protein; Region: PhnA; pfam03831 391165003078 Membrane glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: MdoH; COG2943 391165003079 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 391165003080 Ligand binding site; other site 391165003081 DXD motif; other site 391165003082 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 391165003083 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 391165003084 LabA_like proteins; Region: LabA; cd10911 391165003085 putative metal binding site [ion binding]; other site 391165003086 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 391165003087 catalytic center binding site [active] 391165003088 ATP binding site [chemical binding]; other site 391165003089 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 391165003090 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 391165003091 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 391165003092 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 391165003093 synthetase active site [active] 391165003094 NTP binding site [chemical binding]; other site 391165003095 metal binding site [ion binding]; metal-binding site 391165003096 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 391165003097 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 391165003098 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 391165003099 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 391165003100 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 391165003101 Catalytic site [active] 391165003102 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 391165003103 ribonuclease III; Reviewed; Region: rnc; PRK00102 391165003104 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 391165003105 dimerization interface [polypeptide binding]; other site 391165003106 active site 391165003107 metal binding site [ion binding]; metal-binding site 391165003108 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 391165003109 dsRNA binding site [nucleotide binding]; other site 391165003110 GTPase Era; Reviewed; Region: era; PRK00089 391165003111 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 391165003112 G1 box; other site 391165003113 GTP/Mg2+ binding site [chemical binding]; other site 391165003114 Switch I region; other site 391165003115 G2 box; other site 391165003116 Switch II region; other site 391165003117 G3 box; other site 391165003118 G4 box; other site 391165003119 G5 box; other site 391165003120 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 391165003121 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 391165003122 Recombination protein O N terminal; Region: RecO_N; cl15812 391165003123 Recombination protein O C terminal; Region: RecO_C; pfam02565 391165003124 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 391165003125 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 391165003126 CAP-like domain; other site 391165003127 active site 391165003128 primary dimer interface [polypeptide binding]; other site 391165003129 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 391165003130 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 391165003131 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 391165003132 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 391165003133 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 391165003134 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 391165003135 active site 391165003136 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 391165003137 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 391165003138 catalytic loop [active] 391165003139 iron binding site [ion binding]; other site 391165003140 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 391165003141 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 391165003142 dimer interface [polypeptide binding]; other site 391165003143 allosteric magnesium binding site [ion binding]; other site 391165003144 active site 391165003145 aspartate-rich active site metal binding site; other site 391165003146 Schiff base residues; other site 391165003147 thiamine monophosphate kinase; Provisional; Region: PRK05731 391165003148 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 391165003149 ATP binding site [chemical binding]; other site 391165003150 dimerization interface [polypeptide binding]; other site 391165003151 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 391165003152 putative RNA binding site [nucleotide binding]; other site 391165003153 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 391165003154 homopentamer interface [polypeptide binding]; other site 391165003155 active site 391165003156 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 391165003157 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 391165003158 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cl00522 391165003159 dimerization interface [polypeptide binding]; other site 391165003160 active site 391165003161 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 391165003162 Lumazine binding domain; Region: Lum_binding; pfam00677 391165003163 Lumazine binding domain; Region: Lum_binding; pfam00677 391165003164 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 391165003165 ATP cone domain; Region: ATP-cone; pfam03477 391165003166 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 391165003167 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 391165003168 dimer interface [polypeptide binding]; other site 391165003169 active site 391165003170 glycine-pyridoxal phosphate binding site [chemical binding]; other site 391165003171 folate binding site [chemical binding]; other site 391165003172 amino acid transporter; Region: 2A0306; TIGR00909 391165003173 Spore germination protein; Region: Spore_permease; cl15802 391165003174 Spore germination protein; Region: Spore_permease; cl15802 391165003175 Spore germination protein; Region: Spore_permease; cl15802 391165003176 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 391165003177 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 391165003178 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 391165003179 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 391165003180 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 391165003181 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 391165003182 dimer interface [polypeptide binding]; other site 391165003183 active site 391165003184 CoA binding pocket [chemical binding]; other site 391165003185 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 391165003186 IHF dimer interface [polypeptide binding]; other site 391165003187 IHF - DNA interface [nucleotide binding]; other site 391165003188 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 391165003189 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 391165003190 DNA binding residues [nucleotide binding] 391165003191 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 391165003192 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 391165003193 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 391165003194 substrate binding site; other site 391165003195 dimer interface; other site 391165003196 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 391165003197 homotrimer interaction site [polypeptide binding]; other site 391165003198 zinc binding site [ion binding]; other site 391165003199 CDP-binding sites; other site 391165003200 Response regulator receiver domain; Region: Response_reg; pfam00072 391165003201 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 391165003202 active site 391165003203 phosphorylation site [posttranslational modification] 391165003204 intermolecular recognition site; other site 391165003205 dimerization interface [polypeptide binding]; other site 391165003206 CsbD-like; Region: CsbD; cl15799 391165003207 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 391165003208 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 391165003209 NAD(P) binding site [chemical binding]; other site 391165003210 catalytic residues [active] 391165003211 Protein of unknown function (DUF779); Region: DUF779; cl01432 391165003212 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 391165003213 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 391165003214 FAD binding pocket [chemical binding]; other site 391165003215 FAD binding motif [chemical binding]; other site 391165003216 phosphate binding motif [ion binding]; other site 391165003217 beta-alpha-beta structure motif; other site 391165003218 NAD binding pocket [chemical binding]; other site 391165003219 Domain of unknown function (DUF329); Region: DUF329; cl01144 391165003220 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 391165003221 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 391165003222 homodimer interface [polypeptide binding]; other site 391165003223 oligonucleotide binding site [chemical binding]; other site 391165003224 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 391165003225 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 391165003226 active site 391165003227 dimer interface [polypeptide binding]; other site 391165003228 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 391165003229 rRNA binding site [nucleotide binding]; other site 391165003230 predicted 30S ribosome binding site; other site 391165003231 histidinol dehydrogenase; Region: hisD; TIGR00069 391165003232 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 391165003233 NAD binding site [chemical binding]; other site 391165003234 dimerization interface [polypeptide binding]; other site 391165003235 product binding site; other site 391165003236 substrate binding site [chemical binding]; other site 391165003237 zinc binding site [ion binding]; other site 391165003238 catalytic residues [active] 391165003239 ATP phosphoribosyltransferase; Region: HisG; cl15266 391165003240 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 391165003241 catalytic residues [active] 391165003242 dimer interface [polypeptide binding]; other site 391165003243 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 391165003244 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 391165003245 N-terminal plug; other site 391165003246 ligand-binding site [chemical binding]; other site 391165003247 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 391165003248 S-adenosylmethionine binding site [chemical binding]; other site 391165003249 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 391165003250 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 391165003251 hinge; other site 391165003252 active site 391165003253 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 391165003254 trimer interface [polypeptide binding]; other site 391165003255 active site 391165003256 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 391165003257 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 391165003258 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 391165003259 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 391165003260 active site 391165003261 fumarate hydratase; Reviewed; Region: fumC; PRK00485 391165003262 Class II fumarases; Region: Fumarase_classII; cd01362 391165003263 active site 391165003264 tetramer interface [polypeptide binding]; other site 391165003265 Uncharacterized conserved protein [Function unknown]; Region: COG2966 391165003266 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 391165003267 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 391165003268 Cupin domain; Region: Cupin_2; cl09118 391165003269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165003270 Predicted dehydrogenase [General function prediction only]; Region: COG0579 391165003271 DDE superfamily endonuclease; Region: DDE_4; cl15789 391165003272 Transposase; Region: DEDD_Tnp_IS110; pfam01548 391165003273 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 391165003274 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 391165003275 enoyl_reductase_like; Region: enoyl_reductase_like; cd08249 391165003276 L-threonine 3-dehydrogenase; Region: tdh; TIGR00692 391165003277 NAD(P) binding site [chemical binding]; other site 391165003278 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 391165003279 putative effector binding pocket; other site 391165003280 putative dimerization interface [polypeptide binding]; other site 391165003281 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 391165003282 classical (c) SDRs; Region: SDR_c; cd05233 391165003283 NAD(P) binding site [chemical binding]; other site 391165003284 active site 391165003285 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 391165003286 Major Facilitator Superfamily; Region: MFS_1; pfam07690 391165003287 putative substrate translocation pore; other site 391165003288 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 391165003289 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 391165003290 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 391165003291 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165003292 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 391165003293 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 391165003294 putative active site [active] 391165003295 metal binding site [ion binding]; metal-binding site 391165003296 Transcriptional regulator [Transcription]; Region: LysR; COG0583 391165003297 Helix-turn-helix domains; Region: HTH; cl00088 391165003298 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 391165003299 dimerization interface [polypeptide binding]; other site 391165003300 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 391165003301 putative NAD(P) binding site [chemical binding]; other site 391165003302 Protein of unknown function (DUF2699); Region: DUF2699; pfam10919 391165003303 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 391165003304 conjugal transfer protein TrbL; Provisional; Region: PRK13875 391165003305 VirB8 protein; Region: VirB8; cl01500 391165003306 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 391165003307 VirB7 interaction site; other site 391165003308 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 391165003309 Protein of unknown function (DUF2274); Region: DUF2274; cl02406 391165003310 Predicted transcriptional regulator [Transcription]; Region: COG4190 391165003311 Helix-turn-helix domains; Region: HTH; cl00088 391165003312 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; cl01409 391165003313 Transglycosylase SLT domain; Region: SLT_2; pfam13406 391165003314 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 391165003315 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 391165003316 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 391165003317 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 391165003318 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 391165003319 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 391165003320 Helix-turn-helix domains; Region: HTH; cl00088 391165003321 WHG domain; Region: WHG; pfam13305 391165003322 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 391165003323 thymidylate kinase; Validated; Region: tmk; PRK00698 391165003324 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 391165003325 TMP-binding site; other site 391165003326 ATP-binding site [chemical binding]; other site 391165003327 DNA polymerase III subunit delta'; Validated; Region: PRK07471 391165003328 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165003329 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 391165003330 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 391165003331 active site 391165003332 HIGH motif; other site 391165003333 KMSKS motif; other site 391165003334 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 391165003335 tRNA binding surface [nucleotide binding]; other site 391165003336 anticodon binding site; other site 391165003337 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 391165003338 active site 391165003339 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 391165003340 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 391165003341 hypothetical protein; Validated; Region: PRK09039 391165003342 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 391165003343 ligand binding site [chemical binding]; other site 391165003344 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 391165003345 ligand binding site [chemical binding]; other site 391165003346 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 391165003347 active site 391165003348 dimerization interface [polypeptide binding]; other site 391165003349 elongation factor P; Validated; Region: PRK00529 391165003350 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 391165003351 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 391165003352 RNA binding site [nucleotide binding]; other site 391165003353 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 391165003354 RNA binding site [nucleotide binding]; other site 391165003355 Radical SAM superfamily; Region: Radical_SAM; pfam04055 391165003356 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 391165003357 FeS/SAM binding site; other site 391165003358 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 391165003359 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 391165003360 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 391165003361 motif 1; other site 391165003362 dimer interface [polypeptide binding]; other site 391165003363 active site 391165003364 motif 2; other site 391165003365 motif 3; other site 391165003366 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 391165003367 thiamine phosphate binding site [chemical binding]; other site 391165003368 active site 391165003369 pyrophosphate binding site [ion binding]; other site 391165003370 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 391165003371 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 391165003372 putative active site; other site 391165003373 catalytic residue [active] 391165003374 Cell division protein ZapA; Region: ZapA; cl01146 391165003375 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 391165003376 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 391165003377 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 391165003378 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 391165003379 putative active site [active] 391165003380 metal binding site [ion binding]; metal-binding site 391165003381 homodimer binding site [polypeptide binding]; other site 391165003382 Transcriptional regulator; Region: Transcrip_reg; cl00361 391165003383 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 391165003384 active site 391165003385 putative DNA-binding cleft [nucleotide binding]; other site 391165003386 dimer interface [polypeptide binding]; other site 391165003387 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 391165003388 RuvA N terminal domain; Region: RuvA_N; pfam01330 391165003389 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 391165003390 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 391165003391 putative FMN binding site [chemical binding]; other site 391165003392 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 391165003393 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 391165003394 Walker A motif; other site 391165003395 ATP binding site [chemical binding]; other site 391165003396 Walker B motif; other site 391165003397 arginine finger; other site 391165003398 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 391165003399 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 391165003400 active site 391165003401 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 391165003402 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 391165003403 TolB amino-terminal domain; Region: TolB_N; cl00639 391165003404 translocation protein TolB; Provisional; Region: tolB; PRK05137 391165003405 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 391165003406 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 391165003407 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 391165003408 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 391165003409 ligand binding site [chemical binding]; other site 391165003410 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 391165003411 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 391165003412 Ligand Binding Site [chemical binding]; other site 391165003413 FtsH Extracellular; Region: FtsH_ext; pfam06480 391165003414 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 391165003415 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 391165003416 Walker A motif; other site 391165003417 ATP binding site [chemical binding]; other site 391165003418 Walker B motif; other site 391165003419 arginine finger; other site 391165003420 Peptidase family M41; Region: Peptidase_M41; pfam01434 391165003421 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 391165003422 dihydropteroate synthase; Region: DHPS; TIGR01496 391165003423 substrate binding pocket [chemical binding]; other site 391165003424 dimer interface [polypeptide binding]; other site 391165003425 inhibitor binding site; inhibition site 391165003426 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 391165003427 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 391165003428 active site 391165003429 substrate binding site [chemical binding]; other site 391165003430 metal binding site [ion binding]; metal-binding site 391165003431 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 391165003432 dimer interface [polypeptide binding]; other site 391165003433 substrate binding site [chemical binding]; other site 391165003434 ATP binding site [chemical binding]; other site 391165003435 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 391165003436 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 391165003437 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 391165003438 active site 391165003439 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 391165003440 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 391165003441 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 391165003442 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 391165003443 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 391165003444 active site 391165003445 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 391165003446 homodimer interface [polypeptide binding]; other site 391165003447 substrate-cofactor binding pocket; other site 391165003448 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165003449 catalytic residue [active] 391165003450 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 391165003451 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 391165003452 motif II; other site 391165003453 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 391165003454 Sm1 motif; other site 391165003455 intra - hexamer interaction site; other site 391165003456 inter - hexamer interaction site [polypeptide binding]; other site 391165003457 nucleotide binding pocket [chemical binding]; other site 391165003458 Sm2 motif; other site 391165003459 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 391165003460 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 391165003461 HflX GTPase family; Region: HflX; cd01878 391165003462 G1 box; other site 391165003463 GTP/Mg2+ binding site [chemical binding]; other site 391165003464 Switch I region; other site 391165003465 G2 box; other site 391165003466 G3 box; other site 391165003467 Switch II region; other site 391165003468 G4 box; other site 391165003469 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 391165003470 active site 391165003471 putative lithium-binding site [ion binding]; other site 391165003472 substrate binding site [chemical binding]; other site 391165003473 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 391165003474 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 391165003475 homodimer interface [polypeptide binding]; other site 391165003476 metal binding site [ion binding]; metal-binding site 391165003477 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 391165003478 homodimer interface [polypeptide binding]; other site 391165003479 active site 391165003480 putative chemical substrate binding site [chemical binding]; other site 391165003481 metal binding site [ion binding]; metal-binding site 391165003482 HPP family; Region: HPP; pfam04982 391165003483 PAS domain; Region: PAS_9; pfam13426 391165003484 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 391165003485 putative active site [active] 391165003486 heme pocket [chemical binding]; other site 391165003487 CheB methylesterase; Region: CheB_methylest; pfam01339 391165003488 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 391165003489 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 391165003490 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; cl16911 391165003491 PAS domain; Region: PAS_10; pfam13596 391165003492 putative diguanylate cyclase; Provisional; Region: PRK09776 391165003493 hypothetical protein; Provisional; Region: PRK13559 391165003494 Histidine kinase; Region: HisKA_2; cl06527 391165003495 Response regulator receiver domain; Region: Response_reg; pfam00072 391165003496 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 391165003497 active site 391165003498 phosphorylation site [posttranslational modification] 391165003499 intermolecular recognition site; other site 391165003500 dimerization interface [polypeptide binding]; other site 391165003501 Hint domain; Region: Hint_2; pfam13403 391165003502 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 391165003503 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 391165003504 active site 391165003505 HIGH motif; other site 391165003506 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 391165003507 KMSKS motif; other site 391165003508 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 391165003509 tRNA binding surface [nucleotide binding]; other site 391165003510 anticodon binding site; other site 391165003511 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 391165003512 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 391165003513 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 391165003514 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165003515 NAD(P) binding site [chemical binding]; other site 391165003516 active site 391165003517 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 391165003518 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 391165003519 inhibitor-cofactor binding pocket; inhibition site 391165003520 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165003521 catalytic residue [active] 391165003522 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 391165003523 putative trimer interface [polypeptide binding]; other site 391165003524 putative CoA binding site [chemical binding]; other site 391165003525 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 391165003526 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 391165003527 active site 391165003528 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 391165003529 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 391165003530 putative [4Fe-4S] binding site [ion binding]; other site 391165003531 putative molybdopterin cofactor binding site [chemical binding]; other site 391165003532 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 391165003533 putative molybdopterin cofactor binding site; other site 391165003534 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 391165003535 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 391165003536 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; cl16911 391165003537 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 391165003538 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 391165003539 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 391165003540 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 391165003541 active site 391165003542 16S rRNA methyltransferase B; Provisional; Region: PRK14902 391165003543 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 391165003544 S-adenosylmethionine binding site [chemical binding]; other site 391165003545 GMP synthase; Reviewed; Region: guaA; PRK00074 391165003546 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 391165003547 AMP/PPi binding site [chemical binding]; other site 391165003548 candidate oxyanion hole; other site 391165003549 catalytic triad [active] 391165003550 potential glutamine specificity residues [chemical binding]; other site 391165003551 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 391165003552 ATP Binding subdomain [chemical binding]; other site 391165003553 Ligand Binding sites [chemical binding]; other site 391165003554 Dimerization subdomain; other site 391165003555 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 391165003556 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 391165003557 active site 391165003558 Int/Topo IB signature motif; other site 391165003559 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; cl01461 391165003560 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 391165003561 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 391165003562 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 391165003563 Cupin domain; Region: Cupin_2; cl09118 391165003564 Transcriptional regulator [Transcription]; Region: LysR; COG0583 391165003565 Helix-turn-helix domains; Region: HTH; cl00088 391165003566 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 391165003567 dimerization interface [polypeptide binding]; other site 391165003568 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 391165003569 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 391165003570 Transcriptional regulator [Transcription]; Region: LysR; COG0583 391165003571 Helix-turn-helix domains; Region: HTH; cl00088 391165003572 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 391165003573 putative effector binding pocket; other site 391165003574 dimerization interface [polypeptide binding]; other site 391165003575 Helix-turn-helix domains; Region: HTH; cl00088 391165003576 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 391165003577 classical (c) SDRs; Region: SDR_c; cd05233 391165003578 NAD(P) binding site [chemical binding]; other site 391165003579 active site 391165003580 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 391165003581 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 391165003582 Domain of unknown function (DUF4180); Region: DUF4180; pfam13788 391165003583 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 391165003584 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 391165003585 Helix-turn-helix domains; Region: HTH; cl00088 391165003586 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 391165003587 dimerization interface [polypeptide binding]; other site 391165003588 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 391165003589 homodimer interaction site [polypeptide binding]; other site 391165003590 cofactor binding site; other site 391165003591 DDE superfamily endonuclease; Region: DDE_4; cl15789 391165003592 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 391165003593 DDE superfamily endonuclease; Region: DDE_4; cl15789 391165003594 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 391165003595 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 391165003596 putative acetyltransferase; Provisional; Region: PRK03624 391165003597 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 391165003598 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 391165003599 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 391165003600 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 391165003601 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165003602 Walker A/P-loop; other site 391165003603 ATP binding site [chemical binding]; other site 391165003604 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 391165003605 putative active site [active] 391165003606 putative metal-binding site [ion binding]; other site 391165003607 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 391165003608 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165003609 enolase; Provisional; Region: eno; PRK00077 391165003610 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 391165003611 dimer interface [polypeptide binding]; other site 391165003612 metal binding site [ion binding]; metal-binding site 391165003613 substrate binding pocket [chemical binding]; other site 391165003614 Septum formation initiator; Region: DivIC; cl11433 391165003615 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 391165003616 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 391165003617 tetramer interface [polypeptide binding]; other site 391165003618 TPP-binding site [chemical binding]; other site 391165003619 heterodimer interface [polypeptide binding]; other site 391165003620 phosphorylation loop region [posttranslational modification] 391165003621 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 391165003622 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 391165003623 E3 interaction surface; other site 391165003624 lipoyl attachment site [posttranslational modification]; other site 391165003625 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 391165003626 alpha subunit interface [polypeptide binding]; other site 391165003627 TPP binding site [chemical binding]; other site 391165003628 heterodimer interface [polypeptide binding]; other site 391165003629 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 391165003630 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 391165003631 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 391165003632 E3 interaction surface; other site 391165003633 lipoyl attachment site [posttranslational modification]; other site 391165003634 e3 binding domain; Region: E3_binding; pfam02817 391165003635 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 391165003636 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 391165003637 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 391165003638 Coenzyme A binding pocket [chemical binding]; other site 391165003639 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 391165003640 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 391165003641 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 391165003642 lipoyl synthase; Provisional; Region: PRK05481 391165003643 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 391165003644 FeS/SAM binding site; other site 391165003645 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 391165003646 putative coenzyme Q binding site [chemical binding]; other site 391165003647 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 391165003648 Amidinotransferase; Region: Amidinotransf; cl12043 391165003649 Competence-damaged protein; Region: CinA; cl00666 391165003650 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 391165003651 tetramer interfaces [polypeptide binding]; other site 391165003652 binuclear metal-binding site [ion binding]; other site 391165003653 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 391165003654 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 391165003655 N-acetyl-D-glucosamine binding site [chemical binding]; other site 391165003656 catalytic residue [active] 391165003657 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 391165003658 dihydrodipicolinate synthase; Region: dapA; TIGR00674 391165003659 dimer interface [polypeptide binding]; other site 391165003660 active site 391165003661 catalytic residue [active] 391165003662 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 391165003663 SmpB-tmRNA interface; other site 391165003664 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; cl16911 391165003665 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; cl16911 391165003666 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 391165003667 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 391165003668 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 391165003669 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165003670 Walker A/P-loop; other site 391165003671 ATP binding site [chemical binding]; other site 391165003672 Q-loop/lid; other site 391165003673 ABC transporter signature motif; other site 391165003674 Walker B; other site 391165003675 D-loop; other site 391165003676 H-loop/switch region; other site 391165003677 ABC-2 type transporter; Region: ABC2_membrane; cl11417 391165003678 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 391165003679 Domain of unknown function (DUF4340); Region: DUF4340; pfam14238 391165003680 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_15; cd04673 391165003681 nudix motif; other site 391165003682 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 391165003683 putative substrate translocation pore; other site 391165003684 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 391165003685 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 391165003686 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 391165003687 metal binding site [ion binding]; metal-binding site 391165003688 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 391165003689 dimer interface [polypeptide binding]; other site 391165003690 putative PBP binding regions; other site 391165003691 ABC-ATPase subunit interface; other site 391165003692 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 391165003693 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of...; Region: ABC_Metallic_Cations; cd03235 391165003694 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 391165003695 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 391165003696 metal binding site 2 [ion binding]; metal-binding site 391165003697 putative DNA binding helix; other site 391165003698 metal binding site 1 [ion binding]; metal-binding site 391165003699 dimer interface [polypeptide binding]; other site 391165003700 structural Zn2+ binding site [ion binding]; other site 391165003701 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 391165003702 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 391165003703 HerA helicase [Replication, recombination, and repair]; Region: COG0433 391165003704 TMAO/DMSO reductase; Reviewed; Region: PRK05363 391165003705 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 391165003706 Moco binding site; other site 391165003707 metal coordination site [ion binding]; other site 391165003708 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 391165003709 active site 391165003710 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 391165003711 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 391165003712 active site 391165003713 (T/H)XGH motif; other site 391165003714 DNA gyrase, A subunit; Region: gyrA; TIGR01063 391165003715 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 391165003716 CAP-like domain; other site 391165003717 active site 391165003718 primary dimer interface [polypeptide binding]; other site 391165003719 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 391165003720 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 391165003721 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 391165003722 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 391165003723 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 391165003724 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 391165003725 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 391165003726 dimer interface [polypeptide binding]; other site 391165003727 ssDNA binding site [nucleotide binding]; other site 391165003728 tetramer (dimer of dimers) interface [polypeptide binding]; other site 391165003729 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 391165003730 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 391165003731 The excision repair protein UvrA domain I; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_I; cd03270 391165003732 The excision repair protein UvrA domain II; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep...; Region: ABC_UvrA_II; cd03271 391165003733 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 391165003734 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 391165003735 active site 391165003736 phosphorylation site [posttranslational modification] 391165003737 intermolecular recognition site; other site 391165003738 dimerization interface [polypeptide binding]; other site 391165003739 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 391165003740 Walker A motif; other site 391165003741 ATP binding site [chemical binding]; other site 391165003742 Walker B motif; other site 391165003743 arginine finger; other site 391165003744 Helix-turn-helix domains; Region: HTH; cl00088 391165003745 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 391165003746 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 391165003747 dimerization interface [polypeptide binding]; other site 391165003748 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 391165003749 dimer interface [polypeptide binding]; other site 391165003750 phosphorylation site [posttranslational modification] 391165003751 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 391165003752 ATP binding site [chemical binding]; other site 391165003753 Mg2+ binding site [ion binding]; other site 391165003754 G-X-G motif; other site 391165003755 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 391165003756 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 391165003757 active site 391165003758 phosphorylation site [posttranslational modification] 391165003759 intermolecular recognition site; other site 391165003760 dimerization interface [polypeptide binding]; other site 391165003761 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 391165003762 Walker A motif; other site 391165003763 ATP binding site [chemical binding]; other site 391165003764 Walker B motif; other site 391165003765 arginine finger; other site 391165003766 Helix-turn-helix domains; Region: HTH; cl00088 391165003767 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 391165003768 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 391165003769 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 391165003770 dimer interface [polypeptide binding]; other site 391165003771 phosphorylation site [posttranslational modification] 391165003772 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 391165003773 ATP binding site [chemical binding]; other site 391165003774 Mg2+ binding site [ion binding]; other site 391165003775 G-X-G motif; other site 391165003776 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 391165003777 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 391165003778 FMN binding site [chemical binding]; other site 391165003779 active site 391165003780 catalytic residues [active] 391165003781 substrate binding site [chemical binding]; other site 391165003782 FAD binding domain; Region: FAD_binding_4; pfam01565 391165003783 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 391165003784 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 391165003785 FAD binding domain; Region: FAD_binding_4; pfam01565 391165003786 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 391165003787 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 391165003788 dimer interface [polypeptide binding]; other site 391165003789 active site 391165003790 metal binding site [ion binding]; metal-binding site 391165003791 glutathione binding site [chemical binding]; other site 391165003792 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 391165003793 Protein of unknown function (DUF983); Region: DUF983; cl02211 391165003794 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 391165003795 putative mechanosensitive channel protein; Provisional; Region: PRK11465 391165003796 Mechanosensitive ion channel; Region: MS_channel; pfam00924 391165003797 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 391165003798 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 391165003799 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 391165003800 glutaminase active site [active] 391165003801 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 391165003802 dimer interface [polypeptide binding]; other site 391165003803 active site 391165003804 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 391165003805 dimer interface [polypeptide binding]; other site 391165003806 active site 391165003807 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 391165003808 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 391165003809 Substrate binding site; other site 391165003810 Mg++ binding site; other site 391165003811 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 391165003812 active site 391165003813 substrate binding site [chemical binding]; other site 391165003814 CoA binding site [chemical binding]; other site 391165003815 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 391165003816 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 391165003817 motif II; other site 391165003818 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 391165003819 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 391165003820 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 391165003821 active site 391165003822 homotetramer interface [polypeptide binding]; other site 391165003823 Protein of unknown function (DUF989); Region: DUF989; pfam06181 391165003824 Predicted membrane protein [Function unknown]; Region: COG3748 391165003825 Cytochrome c; Region: Cytochrom_C; cl11414 391165003826 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 391165003827 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 391165003828 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165003829 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 391165003830 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 391165003831 Preprotein translocase subunit; Region: YajC; cl00806 391165003832 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 391165003833 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165003834 Peptidase family M48; Region: Peptidase_M48; cl12018 391165003835 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 391165003836 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 391165003837 oligomerization interface [polypeptide binding]; other site 391165003838 active site 391165003839 metal binding site [ion binding]; metal-binding site 391165003840 seryl-tRNA synthetase; Provisional; Region: PRK05431 391165003841 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 391165003842 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 391165003843 dimer interface [polypeptide binding]; other site 391165003844 active site 391165003845 motif 1; other site 391165003846 motif 2; other site 391165003847 motif 3; other site 391165003848 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 391165003849 sec-independent translocase; Provisional; Region: PRK00708 391165003850 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 391165003851 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 391165003852 ScpA/B protein; Region: ScpA_ScpB; cl00598 391165003853 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 391165003854 active site 391165003855 putative substrate binding region [chemical binding]; other site 391165003856 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 391165003857 Sporulation related domain; Region: SPOR; cl10051 391165003858 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 391165003859 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 391165003860 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 391165003861 active site 391165003862 HIGH motif; other site 391165003863 KMSK motif region; other site 391165003864 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 391165003865 tRNA binding surface [nucleotide binding]; other site 391165003866 anticodon binding site; other site 391165003867 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 391165003868 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 391165003869 Zn2+ binding site [ion binding]; other site 391165003870 Mg2+ binding site [ion binding]; other site 391165003871 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 391165003872 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 391165003873 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 391165003874 putative catalytic site [active] 391165003875 putative phosphate binding site [ion binding]; other site 391165003876 active site 391165003877 metal binding site A [ion binding]; metal-binding site 391165003878 DNA binding site [nucleotide binding] 391165003879 putative AP binding site [nucleotide binding]; other site 391165003880 putative metal binding site B [ion binding]; other site 391165003881 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 391165003882 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 391165003883 putative substrate translocation pore; other site 391165003884 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 391165003885 MFS transport protein AraJ; Provisional; Region: PRK10091 391165003886 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 391165003887 putative substrate translocation pore; other site 391165003888 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 391165003889 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 391165003890 substrate binding pocket [chemical binding]; other site 391165003891 membrane-bound complex binding site; other site 391165003892 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 391165003893 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 391165003894 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 391165003895 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 391165003896 Walker A/P-loop; other site 391165003897 ATP binding site [chemical binding]; other site 391165003898 Q-loop/lid; other site 391165003899 ABC transporter signature motif; other site 391165003900 Walker B; other site 391165003901 D-loop; other site 391165003902 H-loop/switch region; other site 391165003903 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 391165003904 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 391165003905 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 391165003906 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 391165003907 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 391165003908 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 391165003909 Subunit I/III interface [polypeptide binding]; other site 391165003910 Subunit III/IV interface [polypeptide binding]; other site 391165003911 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 391165003912 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 391165003913 D-pathway; other site 391165003914 Putative ubiquinol binding site [chemical binding]; other site 391165003915 Low-spin heme (heme b) binding site [chemical binding]; other site 391165003916 Putative water exit pathway; other site 391165003917 Binuclear center (heme o3/CuB) [ion binding]; other site 391165003918 K-pathway; other site 391165003919 Putative proton exit pathway; other site 391165003920 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 391165003921 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 391165003922 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 391165003923 elongation factor Ts; Provisional; Region: tsf; PRK09377 391165003924 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 391165003925 Elongation factor TS; Region: EF_TS; pfam00889 391165003926 Elongation factor TS; Region: EF_TS; pfam00889 391165003927 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 391165003928 rRNA interaction site [nucleotide binding]; other site 391165003929 S8 interaction site; other site 391165003930 putative laminin-1 binding site; other site 391165003931 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 391165003932 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 391165003933 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 391165003934 generic binding surface II; other site 391165003935 generic binding surface I; other site 391165003936 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 391165003937 TPR repeat; Region: TPR_11; pfam13414 391165003938 binding surface 391165003939 TPR motif; other site 391165003940 This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE). They are clustered together...; Region: ABC_MJ0796_Lo1CDE_FtsE; cd03255 391165003941 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 391165003942 Walker A/P-loop; other site 391165003943 ATP binding site [chemical binding]; other site 391165003944 Q-loop/lid; other site 391165003945 ABC transporter signature motif; other site 391165003946 Walker B; other site 391165003947 D-loop; other site 391165003948 H-loop/switch region; other site 391165003949 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 391165003950 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 391165003951 FtsX-like permease family; Region: FtsX; cl15850 391165003952 prolyl-tRNA synthetase; Provisional; Region: PRK12325 391165003953 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 391165003954 dimer interface [polypeptide binding]; other site 391165003955 motif 1; other site 391165003956 active site 391165003957 motif 2; other site 391165003958 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 391165003959 active site 391165003960 motif 3; other site 391165003961 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 391165003962 anticodon binding site; other site 391165003963 Protein of unknown function (DUF1467); Region: DUF1467; cl11569 391165003964 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 391165003965 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 391165003966 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 391165003967 Type III pantothenate kinase; Region: Pan_kinase; cl09130 391165003968 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 391165003969 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 391165003970 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 391165003971 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 391165003972 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 391165003973 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 391165003974 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 391165003975 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 391165003976 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 391165003977 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 391165003978 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 391165003979 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 391165003980 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 391165003981 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 391165003982 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 391165003983 4Fe-4S binding domain; Region: Fer4; cl02805 391165003984 4Fe-4S binding domain; Region: Fer4; cl02805 391165003985 NADH dehydrogenase; Region: NADHdh; cl00469 391165003986 NADH dehydrogenase subunit G; Validated; Region: PRK09130 391165003987 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 391165003988 catalytic loop [active] 391165003989 iron binding site [ion binding]; other site 391165003990 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 391165003991 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 391165003992 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 391165003993 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 391165003994 SLBB domain; Region: SLBB; pfam10531 391165003995 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 391165003996 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 391165003997 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 391165003998 putative dimer interface [polypeptide binding]; other site 391165003999 [2Fe-2S] cluster binding site [ion binding]; other site 391165004000 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 391165004001 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 391165004002 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 391165004003 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 391165004004 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 391165004005 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 391165004006 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 391165004007 IHF dimer interface [polypeptide binding]; other site 391165004008 IHF - DNA interface [nucleotide binding]; other site 391165004009 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 391165004010 Found in ATP-dependent protease La (LON); Region: LON; smart00464 391165004011 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 391165004012 Walker A motif; other site 391165004013 ATP binding site [chemical binding]; other site 391165004014 Walker B motif; other site 391165004015 arginine finger; other site 391165004016 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 391165004017 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 391165004018 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 391165004019 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 391165004020 Walker A motif; other site 391165004021 ATP binding site [chemical binding]; other site 391165004022 Walker B motif; other site 391165004023 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 391165004024 Clp protease; Region: CLP_protease; pfam00574 391165004025 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 391165004026 oligomer interface [polypeptide binding]; other site 391165004027 active site residues [active] 391165004028 trigger factor; Provisional; Region: tig; PRK01490 391165004029 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 391165004030 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 391165004031 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 391165004032 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 391165004033 putative substrate binding site [chemical binding]; other site 391165004034 putative ATP binding site [chemical binding]; other site 391165004035 Copper resistance protein D; Region: CopD; cl00563 391165004036 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 391165004037 multidrug efflux system subunit MdtA; Provisional; Region: PRK11556 391165004038 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 391165004039 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 391165004040 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 391165004041 Protein export membrane protein; Region: SecD_SecF; cl14618 391165004042 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 391165004043 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 391165004044 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 391165004045 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK01297 391165004046 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 391165004047 ATP binding site [chemical binding]; other site 391165004048 Mg++ binding site [ion binding]; other site 391165004049 motif III; other site 391165004050 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 391165004051 nucleotide binding region [chemical binding]; other site 391165004052 ATP-binding site [chemical binding]; other site 391165004053 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 391165004054 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; cl16911 391165004055 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 391165004056 Domain of unknown function DUF59; Region: DUF59; cl00941 391165004057 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 391165004058 trimerization site [polypeptide binding]; other site 391165004059 active site 391165004060 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 391165004061 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 391165004062 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 391165004063 catalytic residue [active] 391165004064 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 391165004065 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 391165004066 FeS assembly ATPase SufC; Region: sufC; TIGR01978 391165004067 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 391165004068 Walker A/P-loop; other site 391165004069 ATP binding site [chemical binding]; other site 391165004070 Q-loop/lid; other site 391165004071 ABC transporter signature motif; other site 391165004072 Walker B; other site 391165004073 D-loop; other site 391165004074 H-loop/switch region; other site 391165004075 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 391165004076 putative ABC transporter; Region: ycf24; CHL00085 391165004077 Helix-turn-helix domains; Region: HTH; cl00088 391165004078 Spore Coat Protein U domain; Region: SCPU; cl02253 391165004079 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 391165004080 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 391165004081 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 391165004082 PapC C-terminal domain; Region: PapC_C; pfam13953 391165004083 Spore Coat Protein U domain; Region: SCPU; cl02253 391165004084 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 391165004085 Major Facilitator Superfamily; Region: MFS_1; pfam07690 391165004086 putative substrate translocation pore; other site 391165004087 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 391165004088 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 391165004089 Domain of unknown function (DUF305); Region: DUF305; cl15795 391165004090 Protein of unknown function (DUF445); Region: DUF445; pfam04286 391165004091 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 391165004092 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 391165004093 elongation factor G; Reviewed; Region: PRK12739 391165004094 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 391165004095 G1 box; other site 391165004096 putative GEF interaction site [polypeptide binding]; other site 391165004097 GTP/Mg2+ binding site [chemical binding]; other site 391165004098 Switch I region; other site 391165004099 G2 box; other site 391165004100 G3 box; other site 391165004101 Switch II region; other site 391165004102 G4 box; other site 391165004103 G5 box; other site 391165004104 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 391165004105 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 391165004106 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 391165004107 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 391165004108 active site 391165004109 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 391165004110 endonuclease III; Region: ENDO3c; smart00478 391165004111 minor groove reading motif; other site 391165004112 helix-hairpin-helix signature motif; other site 391165004113 substrate binding pocket [chemical binding]; other site 391165004114 active site 391165004115 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 391165004116 folate binding site [chemical binding]; other site 391165004117 NADP+ binding site [chemical binding]; other site 391165004118 Hint domain; Region: Hint_2; pfam13403 391165004119 acyl-CoA esterase; Provisional; Region: PRK10673 391165004120 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 391165004121 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 391165004122 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 391165004123 NAD(P) binding site [chemical binding]; other site 391165004124 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 391165004125 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 391165004126 Cl- selectivity filter; other site 391165004127 Cl- binding residues [ion binding]; other site 391165004128 pore gating glutamate residue; other site 391165004129 dimer interface [polypeptide binding]; other site 391165004130 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 391165004131 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 391165004132 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 391165004133 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 391165004134 FOG: CBS domain [General function prediction only]; Region: COG0517 391165004135 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 391165004136 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 391165004137 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 391165004138 N-terminal domain interface [polypeptide binding]; other site 391165004139 dimer interface [polypeptide binding]; other site 391165004140 substrate binding pocket (H-site) [chemical binding]; other site 391165004141 pyridoxamine kinase; Validated; Region: PRK05756 391165004142 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 391165004143 dimer interface [polypeptide binding]; other site 391165004144 pyridoxal binding site [chemical binding]; other site 391165004145 ATP binding site [chemical binding]; other site 391165004146 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 391165004147 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 391165004148 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 391165004149 N-terminal plug; other site 391165004150 ligand-binding site [chemical binding]; other site 391165004151 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 391165004152 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 391165004153 putative dimer interface [polypeptide binding]; other site 391165004154 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 391165004155 MgtC family; Region: MgtC; pfam02308 391165004156 Protein of unknown function (DUF1192); Region: DUF1192; cl11573 391165004157 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 391165004158 AIR carboxylase; Region: AIRC; cl00310 391165004159 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 391165004160 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 391165004161 ATP-grasp domain; Region: ATP-grasp_4; cl03087 391165004162 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 391165004163 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 391165004164 Eukaryotic protein of unknown function (DUF829); Region: DUF829; pfam05705 391165004165 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 391165004166 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 391165004167 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 391165004168 motif 1; other site 391165004169 active site 391165004170 motif 2; other site 391165004171 motif 3; other site 391165004172 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 391165004173 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cl08187 391165004174 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 391165004175 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 391165004176 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 391165004177 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 391165004178 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 391165004179 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 391165004180 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 391165004181 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 391165004182 CRISPR-associated helicase Cas3; Region: cas3_core; TIGR01587 391165004183 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165004184 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 391165004185 active site 391165004186 catalytic motif [active] 391165004187 Zn binding site [ion binding]; other site 391165004188 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 391165004189 recombinase A; Provisional; Region: recA; PRK09354 391165004190 hexamer interface [polypeptide binding]; other site 391165004191 Walker A motif; other site 391165004192 ATP binding site [chemical binding]; other site 391165004193 Walker B motif; other site 391165004194 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 391165004195 spermidine synthase; Provisional; Region: PRK00811 391165004196 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 391165004197 S-adenosylmethionine binding site [chemical binding]; other site 391165004198 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 391165004199 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 391165004200 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 391165004201 Uncharacterized protein family (UPF0262); Region: UPF0262; cl11489 391165004202 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 391165004203 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182; cl00348 391165004204 Uncharacterized protein conserved in bacteria (DUF2272); Region: DUF2272; cl01776 391165004205 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 391165004206 active site residue [active] 391165004207 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 391165004208 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 391165004209 dimer interface [polypeptide binding]; other site 391165004210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165004211 catalytic residue [active] 391165004212 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 391165004213 putative active site [active] 391165004214 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 391165004215 DHH family; Region: DHH; pfam01368 391165004216 DHHA1 domain; Region: DHHA1; pfam02272 391165004217 Protein of unknown function, DUF606; Region: DUF606; cl01273 391165004218 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 391165004219 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 391165004220 S-adenosylmethionine binding site [chemical binding]; other site 391165004221 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 391165004222 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 391165004223 structural tetrad; other site 391165004224 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 391165004225 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 391165004226 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 391165004227 putative hydrophobic ligand binding site [chemical binding]; other site 391165004228 protein interface [polypeptide binding]; other site 391165004229 gate; other site 391165004230 Hint domain; Region: Hint_2; pfam13403 391165004231 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 391165004232 catalytic core [active] 391165004233 DDE superfamily endonuclease; Region: DDE_4; cl15789 391165004234 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 391165004235 DDE superfamily endonuclease; Region: DDE_4; cl15789 391165004236 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 391165004237 Domain of unknown function (DUF4410); Region: DUF4410; pfam14366 391165004238 transcription elongation factor regulatory protein; Validated; Region: PRK06342 391165004239 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 391165004240 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 391165004241 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 391165004242 active site 391165004243 HIGH motif; other site 391165004244 nucleotide binding site [chemical binding]; other site 391165004245 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 391165004246 active site 391165004247 KMSKS motif; other site 391165004248 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 391165004249 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 391165004250 nicotinate phosphoribosyltransferase; Provisional; Region: PRK07188 391165004251 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl09108 391165004252 active site 391165004253 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 391165004254 Phosphate-starvation-inducible E; Region: PsiE; cl01264 391165004255 Cache domain; Region: Cache_1; pfam02743 391165004256 GAF domain; Region: GAF; cl15785 391165004257 cyclase homology domain; Region: CHD; cd07302 391165004258 dimer interface [polypeptide binding]; other site 391165004259 nucleotidyl binding site; other site 391165004260 metal binding site [ion binding]; metal-binding site 391165004261 Permease; Region: Permease; cl00510 391165004262 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165004263 Walker A/P-loop; other site 391165004264 ATP binding site [chemical binding]; other site 391165004265 Q-loop/lid; other site 391165004266 ABC transporter signature motif; other site 391165004267 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 391165004268 mce related protein; Region: MCE; pfam02470 391165004269 glutathione reductase; Validated; Region: PRK06116 391165004270 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 391165004271 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 391165004272 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; cl16911 391165004273 psiF repeat; Region: PsiF_repeat; pfam07769 391165004274 psiF repeat; Region: PsiF_repeat; pfam07769 391165004275 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 391165004276 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 391165004277 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 391165004278 ligand binding site [chemical binding]; other site 391165004279 homoserine dehydrogenase; Provisional; Region: PRK06349 391165004280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165004281 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 391165004282 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 391165004283 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 391165004284 Predicted transcriptional regulator [Transcription]; Region: COG4957 391165004285 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 391165004286 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 391165004287 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 391165004288 N-acetyl-D-glucosamine binding site [chemical binding]; other site 391165004289 catalytic residue [active] 391165004290 Sporulation related domain; Region: SPOR; cl10051 391165004291 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 391165004292 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 391165004293 putative active site [active] 391165004294 catalytic triad [active] 391165004295 putative dimer interface [polypeptide binding]; other site 391165004296 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 391165004297 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 391165004298 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 391165004299 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 391165004300 calcium binding site 1 [ion binding]; other site 391165004301 active site 391165004302 catalytic triad [active] 391165004303 calcium binding site 2 [ion binding]; other site 391165004304 calcium binding site 3 [ion binding]; other site 391165004305 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 391165004306 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165004307 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 391165004308 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 391165004309 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 391165004310 Protein export membrane protein; Region: SecD_SecF; cl14618 391165004311 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 391165004312 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 391165004313 Protein export membrane protein; Region: SecD_SecF; cl14618 391165004314 GtrA-like protein; Region: GtrA; cl00971 391165004315 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 391165004316 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 391165004317 Ligand binding site; other site 391165004318 Putative Catalytic site; other site 391165004319 DXD motif; other site 391165004320 Permease; Region: Permease; cl00510 391165004321 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 391165004322 ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex...; Region: ABC_Org_Solvent_Resistant; cd03261 391165004323 Walker A/P-loop; other site 391165004324 ATP binding site [chemical binding]; other site 391165004325 Q-loop/lid; other site 391165004326 ABC transporter signature motif; other site 391165004327 Walker B; other site 391165004328 D-loop; other site 391165004329 H-loop/switch region; other site 391165004330 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 391165004331 paraquat-inducible protein B; Provisional; Region: PRK10807 391165004332 mce related protein; Region: MCE; pfam02470 391165004333 Protein of unknown function (DUF330); Region: DUF330; cl01135 391165004334 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 391165004335 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 391165004336 Helix-turn-helix domains; Region: HTH; cl00088 391165004337 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 391165004338 Protein of unknown function (DUF3649); Region: DUF3649; pfam12365 391165004339 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 391165004340 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 391165004341 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 391165004342 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 391165004343 putative substrate translocation pore; other site 391165004344 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 391165004345 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 391165004346 HSP70 interaction site [polypeptide binding]; other site 391165004347 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 391165004348 substrate binding site [polypeptide binding]; other site 391165004349 dimer interface [polypeptide binding]; other site 391165004350 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 391165004351 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 391165004352 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 391165004353 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 391165004354 Ligand binding site; other site 391165004355 Putative Catalytic site; other site 391165004356 DXD motif; other site 391165004357 GtrA-like protein; Region: GtrA; cl00971 391165004358 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 391165004359 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 391165004360 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 391165004361 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 391165004362 rod shape-determining protein MreC; Provisional; Region: PRK13922 391165004363 rod shape-determining protein MreC; Region: MreC; pfam04085 391165004364 rod shape-determining protein MreB; Provisional; Region: PRK13927 391165004365 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 391165004366 ATP binding site [chemical binding]; other site 391165004367 profilin binding site; other site 391165004368 2-isopropylmalate synthase; Validated; Region: PRK00915 391165004369 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 391165004370 active site 391165004371 catalytic residues [active] 391165004372 metal binding site [ion binding]; metal-binding site 391165004373 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 391165004374 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 391165004375 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 391165004376 Catalytic site [active] 391165004377 Hint domain; Region: Hint_2; pfam13403 391165004378 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 391165004379 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 391165004380 ketol-acid reductoisomerase; Provisional; Region: PRK05479 391165004381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165004382 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 391165004383 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 391165004384 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 391165004385 putative valine binding site [chemical binding]; other site 391165004386 dimer interface [polypeptide binding]; other site 391165004387 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 391165004388 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 391165004389 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 391165004390 PYR/PP interface [polypeptide binding]; other site 391165004391 dimer interface [polypeptide binding]; other site 391165004392 TPP binding site [chemical binding]; other site 391165004393 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 391165004394 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 391165004395 TPP-binding site [chemical binding]; other site 391165004396 dimer interface [polypeptide binding]; other site 391165004397 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165004398 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 391165004399 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 391165004400 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 391165004401 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 391165004402 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 391165004403 Walker A/P-loop; other site 391165004404 ATP binding site [chemical binding]; other site 391165004405 Q-loop/lid; other site 391165004406 ABC transporter signature motif; other site 391165004407 Walker B; other site 391165004408 D-loop; other site 391165004409 H-loop/switch region; other site 391165004410 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 391165004411 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 391165004412 putative ligand binding site [chemical binding]; other site 391165004413 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 391165004414 TM-ABC transporter signature motif; other site 391165004415 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 391165004416 TM-ABC transporter signature motif; other site 391165004417 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 391165004418 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 391165004419 Walker A/P-loop; other site 391165004420 ATP binding site [chemical binding]; other site 391165004421 Q-loop/lid; other site 391165004422 ABC transporter signature motif; other site 391165004423 Walker B; other site 391165004424 D-loop; other site 391165004425 H-loop/switch region; other site 391165004426 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 391165004427 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 391165004428 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 391165004429 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 391165004430 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 391165004431 protein binding site [polypeptide binding]; other site 391165004432 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 391165004433 protein binding site [polypeptide binding]; other site 391165004434 Domain of unknown function DUF59; Region: DUF59; cl00941 391165004435 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 391165004436 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 391165004437 Walker A motif; other site 391165004438 PAS fold; Region: PAS_2; pfam08446 391165004439 GAF domain; Region: GAF; cl15785 391165004440 Phytochrome region; Region: PHY; pfam00360 391165004441 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 391165004442 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 391165004443 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 391165004444 N-terminal plug; other site 391165004445 ligand-binding site [chemical binding]; other site 391165004446 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 391165004447 Helix-turn-helix domains; Region: HTH; cl00088 391165004448 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 391165004449 putative dimerization interface [polypeptide binding]; other site 391165004450 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 391165004451 gating phenylalanine in ion channel; other site 391165004452 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 391165004453 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 391165004454 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 391165004455 P loop; other site 391165004456 GTP binding site [chemical binding]; other site 391165004457 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 391165004458 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 391165004459 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 391165004460 FeS/SAM binding site; other site 391165004461 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 391165004462 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 391165004463 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 391165004464 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 391165004465 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 391165004466 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 391165004467 23S rRNA binding site [nucleotide binding]; other site 391165004468 L21 binding site [polypeptide binding]; other site 391165004469 L13 binding site [polypeptide binding]; other site 391165004470 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 391165004471 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 391165004472 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 391165004473 dimer interface [polypeptide binding]; other site 391165004474 motif 1; other site 391165004475 active site 391165004476 motif 2; other site 391165004477 motif 3; other site 391165004478 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 391165004479 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 391165004480 putative tRNA-binding site [nucleotide binding]; other site 391165004481 B3/4 domain; Region: B3_4; cl11458 391165004482 tRNA synthetase B5 domain; Region: B5; cl08394 391165004483 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 391165004484 dimer interface [polypeptide binding]; other site 391165004485 motif 1; other site 391165004486 motif 3; other site 391165004487 motif 2; other site 391165004488 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 391165004489 GTP-binding protein LepA; Provisional; Region: PRK05433 391165004490 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 391165004491 G1 box; other site 391165004492 putative GEF interaction site [polypeptide binding]; other site 391165004493 GTP/Mg2+ binding site [chemical binding]; other site 391165004494 Switch I region; other site 391165004495 G2 box; other site 391165004496 G3 box; other site 391165004497 Switch II region; other site 391165004498 G4 box; other site 391165004499 G5 box; other site 391165004500 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 391165004501 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 391165004502 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 391165004503 integrase; Provisional; Region: PRK09692 391165004504 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 391165004505 active site 391165004506 Int/Topo IB signature motif; other site 391165004507 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165004508 AAA-like domain; Region: AAA_10; pfam12846 391165004509 Walker A motif; other site 391165004510 ATP binding site [chemical binding]; other site 391165004511 Walker B motif; other site 391165004512 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165004513 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 391165004514 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 391165004515 Family description; Region: UvrD_C_2; cl15862 391165004516 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 391165004517 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; cl16911 391165004518 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 391165004519 HicB family; Region: HicB; pfam05534 391165004520 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 391165004521 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 391165004522 ATP binding site [chemical binding]; other site 391165004523 putative Mg++ binding site [ion binding]; other site 391165004524 Pseudomurein-binding repeat; Region: PMBR; pfam09373 391165004525 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 391165004526 Beta protein; Region: Beta_protein; pfam14350 391165004527 Domain of unknown function (DUF955); Region: DUF955; cl01076 391165004528 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 391165004529 NHLM bacteriocin system secretion protein; Region: NHLM_micro_HlyD; TIGR03794 391165004530 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 391165004531 NHLM bacteriocin system ABC transporter, peptidase/ATP-binding protein; Region: NHLM_micro_ABC1; TIGR03796 391165004532 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). The cleavage...; Region: Peptidase_C39_like; cl00296 391165004533 putative active site [active] 391165004534 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 391165004535 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165004536 Walker A/P-loop; other site 391165004537 ATP binding site [chemical binding]; other site 391165004538 Q-loop/lid; other site 391165004539 ABC transporter signature motif; other site 391165004540 Walker B; other site 391165004541 D-loop; other site 391165004542 H-loop/switch region; other site 391165004543 NHLM bacteriocin system ABC transporter, ATP-binding protein; Region: NHLM_micro_ABC2; TIGR03797 391165004544 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 391165004545 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165004546 Walker A/P-loop; other site 391165004547 ATP binding site [chemical binding]; other site 391165004548 Q-loop/lid; other site 391165004549 ABC transporter signature motif; other site 391165004550 Walker B; other site 391165004551 D-loop; other site 391165004552 H-loop/switch region; other site 391165004553 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 391165004554 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 391165004555 Fe-S cluster binding site [ion binding]; other site 391165004556 active site 391165004557 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 391165004558 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 391165004559 FeS/SAM binding site; other site 391165004560 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 391165004561 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 391165004562 NADP binding site [chemical binding]; other site 391165004563 homopentamer interface [polypeptide binding]; other site 391165004564 substrate binding site [chemical binding]; other site 391165004565 active site 391165004566 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 391165004567 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 391165004568 putative active site [active] 391165004569 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 391165004570 putative ligand binding site [chemical binding]; other site 391165004571 putative catalytic site [active] 391165004572 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; cl16911 391165004573 Uncharacterized coiled-coil protein (DUF2353); Region: DUF2353; pfam09789 391165004574 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 391165004575 dimer interface [polypeptide binding]; other site 391165004576 active site 391165004577 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 391165004578 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 391165004579 NAD(P) binding site [chemical binding]; other site 391165004580 catalytic residues [active] 391165004581 Hint domain; Region: Hint_2; pfam13403 391165004582 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 391165004583 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 391165004584 Probable Catalytic site; other site 391165004585 metal-binding site 391165004586 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 391165004587 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 391165004588 CrcB-like protein; Region: CRCB; cl09114 391165004589 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 391165004590 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 391165004591 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 391165004592 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 391165004593 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 391165004594 Helix-turn-helix domains; Region: HTH; cl00088 391165004595 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 391165004596 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165004597 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 391165004598 Calpains, domains IIa, IIb; calcium-dependent cytoplasmic cysteine proteinases, papain-like. Functions in cytoskeletal remodeling processes, cell differentiation, apoptosis and signal transduction; Region: CysPc; cl00051 391165004599 catalytic site [active] 391165004600 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 391165004601 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 391165004602 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 391165004603 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 391165004604 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 391165004605 Orbivirus outer capsid protein VP5; Region: Orbi_VP5; pfam00901 391165004606 Orbivirus outer capsid protein VP5; Region: Orbi_VP5; pfam00901 391165004607 Baseplate J-like protein; Region: Baseplate_J; cl01294 391165004608 isoleucine-tRNA ligase, putative; Provisional; Region: PTZ00427 391165004609 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 391165004610 Protein of unknown function (DUF3277); Region: DUF3277; pfam11681 391165004611 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 391165004612 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 391165004613 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 391165004614 Encapsulating protein for peroxidase; Region: Linocin_M18; cl12047 391165004615 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 391165004616 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; cl15403 391165004617 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 391165004618 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3567; cl12082 391165004619 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 391165004620 Terminase-like family; Region: Terminase_6; pfam03237 391165004621 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 391165004622 Terminase small subunit; Region: Terminase_2; cl01513 391165004623 Cytochrome c; Region: Cytochrom_C; cl11414 391165004624 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 391165004625 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 391165004626 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 391165004627 non-specific DNA binding site [nucleotide binding]; other site 391165004628 salt bridge; other site 391165004629 Predicted transcriptional regulator [Transcription]; Region: COG2932 391165004630 sequence-specific DNA binding site [nucleotide binding]; other site 391165004631 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 391165004632 Catalytic site [active] 391165004633 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 391165004634 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 391165004635 NADH(P)-binding; Region: NAD_binding_10; pfam13460 391165004636 NAD binding site [chemical binding]; other site 391165004637 substrate binding site [chemical binding]; other site 391165004638 putative active site [active] 391165004639 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 391165004640 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 391165004641 heme binding pocket [chemical binding]; other site 391165004642 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 391165004643 domain interactions; other site 391165004644 choline dehydrogenase; Validated; Region: PRK02106 391165004645 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 391165004646 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 391165004647 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 391165004648 NAD(P) binding site [chemical binding]; other site 391165004649 catalytic residues [active] 391165004650 transcriptional regulator BetI; Validated; Region: PRK00767 391165004651 Helix-turn-helix domains; Region: HTH; cl00088 391165004652 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 391165004653 signal recognition particle protein; Provisional; Region: PRK10867 391165004654 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 391165004655 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165004656 Signal peptide binding domain; Region: SRP_SPB; pfam02978 391165004657 Hint domain; Region: Hint_2; pfam13403 391165004658 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 391165004659 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 391165004660 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 391165004661 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 391165004662 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 391165004663 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 391165004664 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 391165004665 active site 391165004666 dimer interface [polypeptide binding]; other site 391165004667 motif 1; other site 391165004668 motif 2; other site 391165004669 motif 3; other site 391165004670 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 391165004671 anticodon binding site; other site 391165004672 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 391165004673 putative heme binding pocket [chemical binding]; other site 391165004674 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 391165004675 calcium binding site 1 [ion binding]; other site 391165004676 active site 391165004677 catalytic triad [active] 391165004678 calcium binding site 2 [ion binding]; other site 391165004679 calcium binding site 3 [ion binding]; other site 391165004680 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 391165004681 hypothetical protein; Provisional; Region: PRK09946 391165004682 FeoA domain; Region: FeoA; cl00838 391165004683 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 391165004684 G1 box; other site 391165004685 GTP/Mg2+ binding site [chemical binding]; other site 391165004686 Switch I region; other site 391165004687 G2 box; other site 391165004688 G3 box; other site 391165004689 Switch II region; other site 391165004690 G4 box; other site 391165004691 G5 box; other site 391165004692 Nucleoside recognition; Region: Gate; cl00486 391165004693 Nucleoside recognition; Region: Gate; cl00486 391165004694 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 391165004695 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 391165004696 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 391165004697 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 391165004698 Protein of unknown function (DUF3792); Region: DUF3792; cl14821 391165004699 YceI-like domain; Region: YceI; cl01001 391165004700 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 391165004701 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 391165004702 NAD binding site [chemical binding]; other site 391165004703 homodimer interface [polypeptide binding]; other site 391165004704 active site 391165004705 substrate binding site [chemical binding]; other site 391165004706 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 391165004707 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 391165004708 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 391165004709 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165004710 Walker A/P-loop; other site 391165004711 ATP binding site [chemical binding]; other site 391165004712 Q-loop/lid; other site 391165004713 ABC transporter signature motif; other site 391165004714 Walker B; other site 391165004715 D-loop; other site 391165004716 H-loop/switch region; other site 391165004717 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 391165004718 active site 391165004719 NTP binding site [chemical binding]; other site 391165004720 metal binding triad [ion binding]; metal-binding site 391165004721 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 391165004722 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 391165004723 putative active site [active] 391165004724 putative CoA binding site [chemical binding]; other site 391165004725 nudix motif; other site 391165004726 metal binding site [ion binding]; metal-binding site 391165004727 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 391165004728 xanthine permease; Region: pbuX; TIGR03173 391165004729 Helix-turn-helix domains; Region: HTH; cl00088 391165004730 Transcriptional regulator [Transcription]; Region: LysR; COG0583 391165004731 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 391165004732 dimerization interface [polypeptide binding]; other site 391165004733 MoxR-like ATPases [General function prediction only]; Region: COG0714 391165004734 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165004735 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 391165004736 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 391165004737 Aerotolerance regulator N-terminal; Region: BatA; cl06567 391165004738 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 391165004739 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 391165004740 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 391165004741 TspO/MBR family; Region: TspO_MBR; cl01379 391165004742 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 391165004743 Helix-turn-helix domains; Region: HTH; cl00088 391165004744 non-specific DNA interactions [nucleotide binding]; other site 391165004745 DNA binding site [nucleotide binding] 391165004746 putative cAMP binding site [chemical binding]; other site 391165004747 sequence specific DNA binding site [nucleotide binding]; other site 391165004748 Hint domain; Region: Hint_2; pfam13403 391165004749 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 391165004750 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 391165004751 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 391165004752 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 391165004753 purine monophosphate binding site [chemical binding]; other site 391165004754 dimer interface [polypeptide binding]; other site 391165004755 putative catalytic residues [active] 391165004756 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 391165004757 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 391165004758 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 391165004759 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 391165004760 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 391165004761 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 391165004762 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 391165004763 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 391165004764 active site 391165004765 hypothetical protein; Reviewed; Region: PRK00024 391165004766 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 391165004767 MPN+ (JAMM) motif; other site 391165004768 Zinc-binding site [ion binding]; other site 391165004769 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 391165004770 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 391165004771 active site 391165004772 phosphorylation site [posttranslational modification] 391165004773 intermolecular recognition site; other site 391165004774 dimerization interface [polypeptide binding]; other site 391165004775 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 391165004776 DNA binding site [nucleotide binding] 391165004777 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 391165004778 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 391165004779 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 391165004780 ATP binding site [chemical binding]; other site 391165004781 Mg2+ binding site [ion binding]; other site 391165004782 G-X-G motif; other site 391165004783 Integral membrane protein TerC family; Region: TerC; cl10468 391165004784 adenylosuccinate lyase; Provisional; Region: PRK07492 391165004785 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 391165004786 tetramer interface [polypeptide binding]; other site 391165004787 active site 391165004788 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 391165004789 NRDE protein; Region: NRDE; cl01315 391165004790 haemagglutination activity domain; Region: Haemagg_act; cl05436 391165004791 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 391165004792 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 391165004793 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 391165004794 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 391165004795 Surface antigen; Region: Bac_surface_Ag; cl03097 391165004796 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 391165004797 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 391165004798 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 391165004799 ATP binding site [chemical binding]; other site 391165004800 active site 391165004801 substrate binding site [chemical binding]; other site 391165004802 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 391165004803 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 391165004804 putative active site [active] 391165004805 catalytic triad [active] 391165004806 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 391165004807 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 391165004808 dimerization interface [polypeptide binding]; other site 391165004809 ATP binding site [chemical binding]; other site 391165004810 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 391165004811 dimerization interface [polypeptide binding]; other site 391165004812 ATP binding site [chemical binding]; other site 391165004813 BolA-like protein; Region: BolA; cl00386 391165004814 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 391165004815 putative GSH binding site [chemical binding]; other site 391165004816 catalytic residues [active] 391165004817 Helix-turn-helix domains; Region: HTH; cl00088 391165004818 Rrf2 family protein; Region: rrf2_super; TIGR00738 391165004819 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 391165004820 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 391165004821 heme-binding site [chemical binding]; other site 391165004822 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 391165004823 FAD binding pocket [chemical binding]; other site 391165004824 FAD binding motif [chemical binding]; other site 391165004825 phosphate binding motif [ion binding]; other site 391165004826 beta-alpha-beta structure motif; other site 391165004827 NAD binding pocket [chemical binding]; other site 391165004828 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 391165004829 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 391165004830 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 391165004831 dimer interface [polypeptide binding]; other site 391165004832 active site 391165004833 heme binding site [chemical binding]; other site 391165004834 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 391165004835 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 391165004836 tartrate dehydrogenase; Provisional; Region: PRK08194 391165004837 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 391165004838 substrate binding site [chemical binding]; other site 391165004839 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 391165004840 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 391165004841 substrate binding site [chemical binding]; other site 391165004842 ligand binding site [chemical binding]; other site 391165004843 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 391165004844 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 391165004845 RimM N-terminal domain; Region: RimM; pfam01782 391165004846 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 391165004847 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 391165004848 FMN-binding domain; Region: FMN_bind; cl01081 391165004849 ApbE family; Region: ApbE; cl00643 391165004850 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 391165004851 LysE type translocator; Region: LysE; cl00565 391165004852 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 391165004853 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165004854 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cl08044 391165004855 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 391165004856 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-E; cl09608 391165004857 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 391165004858 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 391165004859 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cd09727 391165004860 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 391165004861 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cl08187 391165004862 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 391165004863 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 391165004864 GTPase CgtA; Reviewed; Region: obgE; PRK12299 391165004865 GTP1/OBG; Region: GTP1_OBG; pfam01018 391165004866 Obg GTPase; Region: Obg; cd01898 391165004867 G1 box; other site 391165004868 GTP/Mg2+ binding site [chemical binding]; other site 391165004869 Switch I region; other site 391165004870 G2 box; other site 391165004871 G3 box; other site 391165004872 Switch II region; other site 391165004873 G4 box; other site 391165004874 G5 box; other site 391165004875 gamma-glutamyl kinase; Provisional; Region: PRK05429 391165004876 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 391165004877 nucleotide binding site [chemical binding]; other site 391165004878 homotetrameric interface [polypeptide binding]; other site 391165004879 putative phosphate binding site [ion binding]; other site 391165004880 putative allosteric binding site; other site 391165004881 PUA domain; Region: PUA; cl00607 391165004882 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 391165004883 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 391165004884 putative catalytic cysteine [active] 391165004885 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 391165004886 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 391165004887 active site 391165004888 (T/H)XGH motif; other site 391165004889 Oligomerisation domain; Region: Oligomerisation; cl00519 391165004890 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 391165004891 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 391165004892 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 391165004893 Sulfatase; Region: Sulfatase; cl10460 391165004894 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 391165004895 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 391165004896 C-terminal peptidase (prc); Region: prc; TIGR00225 391165004897 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 391165004898 protein binding site [polypeptide binding]; other site 391165004899 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 391165004900 Catalytic dyad [active] 391165004901 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 391165004902 putative active site [active] 391165004903 Ap4A binding site [chemical binding]; other site 391165004904 nudix motif; other site 391165004905 putative metal binding site [ion binding]; other site 391165004906 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165004907 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 391165004908 NAD(P) binding site [chemical binding]; other site 391165004909 active site 391165004910 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 391165004911 putative deacylase active site [active] 391165004912 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 391165004913 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 391165004914 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 391165004915 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 391165004916 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 391165004917 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 391165004918 putative substrate translocation pore; other site 391165004919 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 391165004920 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 391165004921 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 391165004922 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 391165004923 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 391165004924 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 391165004925 [4Fe-4S] binding site [ion binding]; other site 391165004926 molybdopterin cofactor binding site; other site 391165004927 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 391165004928 molybdopterin cofactor binding site; other site 391165004929 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 391165004930 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 391165004931 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 391165004932 [2Fe-2S] cluster binding site [ion binding]; other site 391165004933 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 391165004934 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 391165004935 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 391165004936 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 391165004937 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 391165004938 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 391165004939 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 391165004940 putative substrate translocation pore; other site 391165004941 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 391165004942 NMT1-like family; Region: NMT1_2; cl15260 391165004943 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 391165004944 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 391165004945 active site 391165004946 phosphorylation site [posttranslational modification] 391165004947 intermolecular recognition site; other site 391165004948 dimerization interface [polypeptide binding]; other site 391165004949 ANTAR domain; Region: ANTAR; cl04297 391165004950 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 391165004951 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 391165004952 active site 391165004953 homotetramer interface [polypeptide binding]; other site 391165004954 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 391165004955 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 391165004956 active site 391165004957 motif I; other site 391165004958 motif II; other site 391165004959 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 391165004960 mce related protein; Region: MCE; pfam02470 391165004961 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; cl01534 391165004962 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 391165004963 TSCPD domain; Region: TSCPD; cl14834 391165004964 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 391165004965 homotrimer interaction site [polypeptide binding]; other site 391165004966 putative active site [active] 391165004967 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 391165004968 Protein of unknown function, DUF482; Region: DUF482; pfam04339 391165004969 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 391165004970 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 391165004971 putative catalytic site [active] 391165004972 putative metal binding site [ion binding]; other site 391165004973 putative phosphate binding site [ion binding]; other site 391165004974 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 391165004975 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 391165004976 putative NAD(P) binding site [chemical binding]; other site 391165004977 homodimer interface [polypeptide binding]; other site 391165004978 homotetramer interface [polypeptide binding]; other site 391165004979 active site 391165004980 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 391165004981 allophanate hydrolase; Provisional; Region: PRK08186 391165004982 Amidase; Region: Amidase; cl11426 391165004983 urea carboxylase; Region: urea_carbox; TIGR02712 391165004984 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 391165004985 ATP-grasp domain; Region: ATP-grasp_4; cl03087 391165004986 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 391165004987 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 391165004988 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 391165004989 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 391165004990 carboxyltransferase (CT) interaction site; other site 391165004991 biotinylation site [posttranslational modification]; other site 391165004992 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 391165004993 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 391165004994 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 391165004995 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 391165004996 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 391165004997 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 391165004998 Walker A/P-loop; other site 391165004999 ATP binding site [chemical binding]; other site 391165005000 Q-loop/lid; other site 391165005001 ABC transporter signature motif; other site 391165005002 Walker B; other site 391165005003 D-loop; other site 391165005004 H-loop/switch region; other site 391165005005 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 391165005006 dimer interface [polypeptide binding]; other site 391165005007 conserved gate region; other site 391165005008 putative PBP binding loops; other site 391165005009 ABC-ATPase subunit interface; other site 391165005010 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 391165005011 NMT1-like family; Region: NMT1_2; cl15260 391165005012 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 391165005013 Clp amino terminal domain; Region: Clp_N; pfam02861 391165005014 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 391165005015 Walker A motif; other site 391165005016 ATP binding site [chemical binding]; other site 391165005017 Walker B motif; other site 391165005018 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 391165005019 arginine finger; other site 391165005020 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 391165005021 Walker A motif; other site 391165005022 ATP binding site [chemical binding]; other site 391165005023 Walker B motif; other site 391165005024 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 391165005025 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 391165005026 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 391165005027 putative ADP-binding pocket [chemical binding]; other site 391165005028 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 391165005029 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 391165005030 putative RNA binding site [nucleotide binding]; other site 391165005031 16S rRNA methyltransferase B; Provisional; Region: PRK10901 391165005032 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; cl16911 391165005033 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 391165005034 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 391165005035 type II secretion system protein E; Region: type_II_gspE; TIGR02533 391165005036 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 391165005037 Walker A motif; other site 391165005038 ATP binding site [chemical binding]; other site 391165005039 Walker B motif; other site 391165005040 type II secretion system protein F; Region: GspF; TIGR02120 391165005041 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 391165005042 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 391165005043 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 391165005044 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 391165005045 Type II transport protein GspH; Region: GspH; pfam12019 391165005046 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 391165005047 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 391165005048 Type II secretion system (T2SS), protein M subtype b; Region: T2SM_b; pfam10741 391165005049 Catalytic domain of uncharacterized hypothetical proteins similar to eukaryotic phosphatidylinositol-specific phospholipase C, X domain containing proteins; Region: PI-PLCXDc_like_1; cd08620 391165005050 putative active site [active] 391165005051 catalytic site [active] 391165005052 type II secretion system protein D; Region: type_II_gspD; TIGR02517 391165005053 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 391165005054 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 391165005055 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 391165005056 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 391165005057 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 391165005058 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 391165005059 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 391165005060 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 391165005061 N-acetyl-D-glucosamine binding site [chemical binding]; other site 391165005062 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 391165005063 substrate binding pocket [chemical binding]; other site 391165005064 Ligand-gated ion channel; Region: Lig_chan; pfam00060 391165005065 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; cl15306 391165005066 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 391165005067 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 391165005068 short chain dehydrogenase; Provisional; Region: PRK06180 391165005069 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 391165005070 NADP binding site [chemical binding]; other site 391165005071 active site 391165005072 steroid binding site; other site 391165005073 Transcriptional regulator [Transcription]; Region: LysR; COG0583 391165005074 Helix-turn-helix domains; Region: HTH; cl00088 391165005075 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 391165005076 putative effector binding pocket; other site 391165005077 putative dimerization interface [polypeptide binding]; other site 391165005078 Helix-turn-helix domains; Region: HTH; cl00088 391165005079 Rrf2 family protein; Region: rrf2_super; TIGR00738 391165005080 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; cl16911 391165005081 Protein of unknown function (DUF3829); Region: DUF3829; pfam12889 391165005082 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 391165005083 Helix-turn-helix domains; Region: HTH; cl00088 391165005084 phenylcoumaran benzylic ether reductase (PCBER) like, atypical (a) SDRs; Region: PCBER_SDR_a; cd05259 391165005085 NAD(P) binding site [chemical binding]; other site 391165005086 active site lysine 391165005087 Epoxide hydrolase N terminus; Region: EHN; pfam06441 391165005088 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 391165005089 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 391165005090 NIPSNAP; Region: NIPSNAP; pfam07978 391165005091 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 391165005092 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 391165005093 putative NAD(P) binding site [chemical binding]; other site 391165005094 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 391165005095 Transposase, Mutator family; Region: Transposase_mut; pfam00872 391165005096 MULE transposase domain; Region: MULE; pfam10551 391165005097 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 391165005098 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 391165005099 hypothetical protein; Provisional; Region: PRK06184 391165005100 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165005101 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165005102 Helix-turn-helix domains; Region: HTH; cl00088 391165005103 Domain of unknown function (DUF4263); Region: DUF4263; pfam14082 391165005104 putative transposase OrfB; Reviewed; Region: PHA02517 391165005105 HTH-like domain; Region: HTH_21; pfam13276 391165005106 Integrase core domain; Region: rve; cl01316 391165005107 Integrase core domain; Region: rve_3; cl15866 391165005108 DDE superfamily endonuclease; Region: DDE_4; cl15789 391165005109 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 391165005110 DDE superfamily endonuclease; Region: DDE_4; cl15789 391165005111 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 391165005112 S-adenosylmethionine binding site [chemical binding]; other site 391165005113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165005114 NmrA-like family; Region: NmrA; pfam05368 391165005115 NAD(P) binding site [chemical binding]; other site 391165005116 active site 391165005117 DDE superfamily endonuclease; Region: DDE_4; cl15789 391165005118 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 391165005119 DDE superfamily endonuclease; Region: DDE_4; cl15789 391165005120 Helix-turn-helix domains; Region: HTH; cl00088 391165005121 Integrase core domain; Region: rve; cl01316 391165005122 Integrase core domain; Region: rve_3; cl15866 391165005123 DDE superfamily endonuclease; Region: DDE_5; cl02413 391165005124 DDE superfamily endonuclease; Region: DDE_4; cl15789 391165005125 putative transposase OrfB; Reviewed; Region: PHA02517 391165005126 HTH-like domain; Region: HTH_21; pfam13276 391165005127 Integrase core domain; Region: rve; cl01316 391165005128 Integrase core domain; Region: rve_3; cl15866 391165005129 Helix-turn-helix domains; Region: HTH; cl00088 391165005130 Predicted transcriptional regulator [Transcription]; Region: COG4957 391165005131 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 391165005132 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 391165005133 active site 391165005134 Int/Topo IB signature motif; other site 391165005135 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 391165005136 Clp amino terminal domain; Region: Clp_N; pfam02861 391165005137 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 391165005138 Walker A motif; other site 391165005139 ATP binding site [chemical binding]; other site 391165005140 Walker B motif; other site 391165005141 arginine finger; other site 391165005142 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 391165005143 Walker A motif; other site 391165005144 ATP binding site [chemical binding]; other site 391165005145 Walker B motif; other site 391165005146 arginine finger; other site 391165005147 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 391165005148 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 391165005149 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 391165005150 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 391165005151 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 391165005152 active site 391165005153 DNA binding site [nucleotide binding] 391165005154 fumarate hydratase; Provisional; Region: PRK15389 391165005155 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 391165005156 Fumarase C-terminus; Region: Fumerase_C; cl00795 391165005157 Stringent starvation protein B; Region: SspB; cl01120 391165005158 Thymidylate synthase complementing protein; Region: Thy1; cl03630 391165005159 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 391165005160 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 391165005161 substrate binding site [chemical binding]; other site 391165005162 dimer interface [polypeptide binding]; other site 391165005163 ATP binding site [chemical binding]; other site 391165005164 N-formylglutamate amidohydrolase; Region: FGase; cl01522 391165005165 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 391165005166 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 391165005167 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 391165005168 substrate binding site [chemical binding]; other site 391165005169 oxyanion hole (OAH) forming residues; other site 391165005170 trimer interface [polypeptide binding]; other site 391165005171 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 391165005172 Cation efflux family; Region: Cation_efflux; cl00316 391165005173 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 391165005174 N-acetyl-D-glucosamine binding site [chemical binding]; other site 391165005175 catalytic residue [active] 391165005176 Sporulation related domain; Region: SPOR; cl10051 391165005177 ABC-2 type transporter; Region: ABC2_membrane; cl11417 391165005178 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 391165005179 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 391165005180 Walker A/P-loop; other site 391165005181 ATP binding site [chemical binding]; other site 391165005182 Q-loop/lid; other site 391165005183 ABC transporter signature motif; other site 391165005184 Walker B; other site 391165005185 D-loop; other site 391165005186 H-loop/switch region; other site 391165005187 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 391165005188 active site 391165005189 Amino acid permease; Region: AA_permease_2; pfam13520 391165005190 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 391165005191 DNA binding residues [nucleotide binding] 391165005192 dimerization interface [polypeptide binding]; other site 391165005193 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 391165005194 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 391165005195 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 391165005196 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 391165005197 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 391165005198 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 391165005199 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 391165005200 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 391165005201 beta-alpha-beta structure motif; other site 391165005202 NAD binding pocket [chemical binding]; other site 391165005203 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 391165005204 catalytic loop [active] 391165005205 iron binding site [ion binding]; other site 391165005206 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 391165005207 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 391165005208 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 391165005209 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 391165005210 LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids. The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a...; Region: ABC_TM1139_LivF_branched; cd03224 391165005211 Walker A/P-loop; other site 391165005212 ATP binding site [chemical binding]; other site 391165005213 Q-loop/lid; other site 391165005214 ABC transporter signature motif; other site 391165005215 Walker B; other site 391165005216 D-loop; other site 391165005217 H-loop/switch region; other site 391165005218 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 391165005219 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 391165005220 Walker A/P-loop; other site 391165005221 ATP binding site [chemical binding]; other site 391165005222 Q-loop/lid; other site 391165005223 ABC transporter signature motif; other site 391165005224 Walker B; other site 391165005225 D-loop; other site 391165005226 H-loop/switch region; other site 391165005227 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 391165005228 TM-ABC transporter signature motif; other site 391165005229 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 391165005230 TM-ABC transporter signature motif; other site 391165005231 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 391165005232 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 391165005233 putative ligand binding site [chemical binding]; other site 391165005234 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 391165005235 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 391165005236 dimer interface [polypeptide binding]; other site 391165005237 phosphorylation site [posttranslational modification] 391165005238 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 391165005239 ATP binding site [chemical binding]; other site 391165005240 Mg2+ binding site [ion binding]; other site 391165005241 G-X-G motif; other site 391165005242 Response regulator receiver domain; Region: Response_reg; pfam00072 391165005243 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 391165005244 active site 391165005245 phosphorylation site [posttranslational modification] 391165005246 intermolecular recognition site; other site 391165005247 Response regulator receiver domain; Region: Response_reg; pfam00072 391165005248 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 391165005249 active site 391165005250 phosphorylation site [posttranslational modification] 391165005251 intermolecular recognition site; other site 391165005252 dimerization interface [polypeptide binding]; other site 391165005253 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 391165005254 DNA binding residues [nucleotide binding] 391165005255 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 391165005256 Predicted amidohydrolase [General function prediction only]; Region: COG0388 391165005257 multimer interface [polypeptide binding]; other site 391165005258 active site 391165005259 catalytic triad [active] 391165005260 dimer interface [polypeptide binding]; other site 391165005261 Transcriptional regulator [Transcription]; Region: LysR; COG0583 391165005262 Helix-turn-helix domains; Region: HTH; cl00088 391165005263 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 391165005264 putative effector binding pocket; other site 391165005265 dimerization interface [polypeptide binding]; other site 391165005266 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 391165005267 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 391165005268 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165005269 EcsC protein family; Region: EcsC; pfam12787 391165005270 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 391165005271 putative mechanosensitive channel protein; Provisional; Region: PRK11465 391165005272 Mechanosensitive ion channel; Region: MS_channel; pfam00924 391165005273 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 391165005274 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 391165005275 Active Sites [active] 391165005276 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 391165005277 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 391165005278 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 391165005279 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 391165005280 binding surface 391165005281 TPR motif; other site 391165005282 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 391165005283 binding surface 391165005284 TPR motif; other site 391165005285 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 391165005286 binding surface 391165005287 TPR motif; other site 391165005288 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 391165005289 Fe-S cluster binding site [ion binding]; other site 391165005290 active site 391165005291 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic 'goose-type' lysozymes (GEWL). LTs catalyze...; Region: LT_GEWL; cd00254 391165005292 N-acetyl-D-glucosamine binding site [chemical binding]; other site 391165005293 catalytic residue [active] 391165005294 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 391165005295 MPT binding site; other site 391165005296 trimer interface [polypeptide binding]; other site 391165005297 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 391165005298 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 391165005299 conserved cys residue [active] 391165005300 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 391165005301 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 391165005302 putative ion selectivity filter; other site 391165005303 putative pore gating glutamate residue; other site 391165005304 putative H+/Cl- coupling transport residue; other site 391165005305 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 391165005306 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 391165005307 FeS/SAM binding site; other site 391165005308 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 391165005309 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 391165005310 RNA/DNA hybrid binding site [nucleotide binding]; other site 391165005311 active site 391165005312 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 391165005313 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; cl16911 391165005314 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; cl11420 391165005315 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 391165005316 Protein of unknown function (DUF721); Region: DUF721; cl02324 391165005317 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 391165005318 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 391165005319 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 391165005320 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 391165005321 Walker A/P-loop; other site 391165005322 ATP binding site [chemical binding]; other site 391165005323 Q-loop/lid; other site 391165005324 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 391165005325 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 391165005326 ABC transporter signature motif; other site 391165005327 Walker B; other site 391165005328 D-loop; other site 391165005329 H-loop/switch region; other site 391165005330 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 391165005331 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 391165005332 Sporozoite P67 surface antigen; Region: Sporozoite_P67; pfam05642 391165005333 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 391165005334 ATP synthase A chain; Region: ATP-synt_A; cl00413 391165005335 ATP synthase subunit C; Region: ATP-synt_C; cl00466 391165005336 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 391165005337 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 391165005338 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 391165005339 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 391165005340 metal ion-dependent adhesion site (MIDAS); other site 391165005341 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 391165005342 secreted effector protein PipB2; Provisional; Region: PRK15196 391165005343 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 391165005344 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 391165005345 LytB protein; Region: LYTB; cl00507 391165005346 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 391165005347 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 391165005348 Phosphotransferase enzyme family; Region: APH; pfam01636 391165005349 putative active site [active] 391165005350 putative substrate binding site [chemical binding]; other site 391165005351 ATP binding site [chemical binding]; other site 391165005352 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 391165005353 RNA/DNA hybrid binding site [nucleotide binding]; other site 391165005354 active site 391165005355 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 391165005356 catalytic triad [active] 391165005357 dimer interface [polypeptide binding]; other site 391165005358 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 391165005359 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 391165005360 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 391165005361 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 391165005362 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 391165005363 quinone interaction residues [chemical binding]; other site 391165005364 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 391165005365 active site 391165005366 catalytic residues [active] 391165005367 FMN binding site [chemical binding]; other site 391165005368 substrate binding site [chemical binding]; other site 391165005369 Predicted transcriptional regulator [Transcription]; Region: COG2932 391165005370 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 391165005371 Catalytic site [active] 391165005372 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 391165005373 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 391165005374 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 391165005375 putative dimer interface [polypeptide binding]; other site 391165005376 N-terminal domain interface [polypeptide binding]; other site 391165005377 putative substrate binding pocket (H-site) [chemical binding]; other site 391165005378 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; cl16911 391165005379 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 391165005380 nudix motif; other site 391165005381 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 391165005382 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 391165005383 Membrane transport protein; Region: Mem_trans; cl09117 391165005384 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 391165005385 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 391165005386 Ethanolamine ammonia-lyase light chain (EutC); Region: EutC; cl01762 391165005387 Spore germination protein; Region: Spore_permease; cl15802 391165005388 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 391165005389 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 391165005390 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 391165005391 dimer interface [polypeptide binding]; other site 391165005392 conserved gate region; other site 391165005393 putative PBP binding loops; other site 391165005394 ABC-ATPase subunit interface; other site 391165005395 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 391165005396 dimer interface [polypeptide binding]; other site 391165005397 conserved gate region; other site 391165005398 putative PBP binding loops; other site 391165005399 ABC-ATPase subunit interface; other site 391165005400 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 391165005401 Part of the ABC transporter complex cysAWTP involved in sulfate import. Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a...; Region: ABC_CysA_sulfate_importer; cd03296 391165005402 Walker A/P-loop; other site 391165005403 ATP binding site [chemical binding]; other site 391165005404 Q-loop/lid; other site 391165005405 ABC transporter signature motif; other site 391165005406 Walker B; other site 391165005407 D-loop; other site 391165005408 H-loop/switch region; other site 391165005409 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 391165005410 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 391165005411 active site 391165005412 phosphorylation site [posttranslational modification] 391165005413 intermolecular recognition site; other site 391165005414 dimerization interface [polypeptide binding]; other site 391165005415 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 391165005416 DNA binding site [nucleotide binding] 391165005417 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 391165005418 dimerization interface [polypeptide binding]; other site 391165005419 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 391165005420 dimer interface [polypeptide binding]; other site 391165005421 phosphorylation site [posttranslational modification] 391165005422 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 391165005423 ATP binding site [chemical binding]; other site 391165005424 Mg2+ binding site [ion binding]; other site 391165005425 G-X-G motif; other site 391165005426 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 391165005427 active site clefts [active] 391165005428 zinc binding site [ion binding]; other site 391165005429 dimer interface [polypeptide binding]; other site 391165005430 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 391165005431 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 391165005432 protein binding site [polypeptide binding]; other site 391165005433 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 391165005434 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 391165005435 active site 391165005436 phosphorylation site [posttranslational modification] 391165005437 intermolecular recognition site; other site 391165005438 dimerization interface [polypeptide binding]; other site 391165005439 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 391165005440 DNA binding residues [nucleotide binding] 391165005441 dimerization interface [polypeptide binding]; other site 391165005442 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 391165005443 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 391165005444 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; cl01155 391165005445 Cytochrome c; Region: Cytochrom_C; cl11414 391165005446 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 391165005447 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165005448 Walker A/P-loop; other site 391165005449 ATP binding site [chemical binding]; other site 391165005450 Q-loop/lid; other site 391165005451 ABC transporter signature motif; other site 391165005452 Walker B; other site 391165005453 D-loop; other site 391165005454 H-loop/switch region; other site 391165005455 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 391165005456 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 391165005457 dimer interface [polypeptide binding]; other site 391165005458 conserved gate region; other site 391165005459 putative PBP binding loops; other site 391165005460 ABC-ATPase subunit interface; other site 391165005461 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; cl15306 391165005462 substrate binding pocket [chemical binding]; other site 391165005463 membrane-bound complex binding site; other site 391165005464 hinge residues; other site 391165005465 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 391165005466 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 391165005467 ligand binding site [chemical binding]; other site 391165005468 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 391165005469 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 391165005470 structural tetrad; other site 391165005471 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 391165005472 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 391165005473 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165005474 Walker A/P-loop; other site 391165005475 ATP binding site [chemical binding]; other site 391165005476 Q-loop/lid; other site 391165005477 ABC transporter signature motif; other site 391165005478 Walker B; other site 391165005479 D-loop; other site 391165005480 H-loop/switch region; other site 391165005481 ABC-2 type transporter; Region: ABC2_membrane; cl11417 391165005482 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 391165005483 active site residue [active] 391165005484 quinoprotein dehydrogenase-associated probable ABC transporter substrate-binding protein; Region: ABC_peri_MoxJ_2; TIGR03871 391165005485 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 391165005486 substrate binding pocket [chemical binding]; other site 391165005487 membrane-bound complex binding site; other site 391165005488 hinge residues; other site 391165005489 Cytochrome c; Region: Cytochrom_C; cl11414 391165005490 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 391165005491 Large subunit of methanol dehydrogenase (moxF); Region: PQQ_MDH; cd10278 391165005492 Trp docking motif [polypeptide binding]; other site 391165005493 dimer interface [polypeptide binding]; other site 391165005494 active site 391165005495 small subunit binding site [polypeptide binding]; other site 391165005496 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 391165005497 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 391165005498 FeS/SAM binding site; other site 391165005499 Domain of unknown function (DUF4008); Region: DUF4008; cl14869 391165005500 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 391165005501 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 391165005502 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 391165005503 Transcriptional regulator [Transcription]; Region: LysR; COG0583 391165005504 Helix-turn-helix domains; Region: HTH; cl00088 391165005505 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 391165005506 dimerization interface [polypeptide binding]; other site 391165005507 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; cl16911 391165005508 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 391165005509 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 391165005510 putative dimer interface [polypeptide binding]; other site 391165005511 [2Fe-2S] cluster binding site [ion binding]; other site 391165005512 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 391165005513 putative dimer interface [polypeptide binding]; other site 391165005514 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 391165005515 SLBB domain; Region: SLBB; pfam10531 391165005516 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 391165005517 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 391165005518 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 391165005519 catalytic loop [active] 391165005520 iron binding site [ion binding]; other site 391165005521 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 391165005522 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 391165005523 [4Fe-4S] binding site [ion binding]; other site 391165005524 molybdopterin cofactor binding site; other site 391165005525 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 391165005526 molybdopterin cofactor binding site; other site 391165005527 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 391165005528 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 391165005529 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 391165005530 putative substrate translocation pore; other site 391165005531 Dehydratase family; Region: ILVD_EDD; cl00340 391165005532 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 391165005533 Helix-turn-helix domains; Region: HTH; cl00088 391165005534 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 391165005535 putative dimerization interface [polypeptide binding]; other site 391165005536 putative substrate binding pocket [chemical binding]; other site 391165005537 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 391165005538 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 391165005539 N-terminal plug; other site 391165005540 ligand-binding site [chemical binding]; other site 391165005541 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 391165005542 catalytic loop [active] 391165005543 iron binding site [ion binding]; other site 391165005544 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 391165005545 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 391165005546 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 391165005547 catalytic residue [active] 391165005548 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 391165005549 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 391165005550 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 391165005551 catalytic residue [active] 391165005552 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 391165005553 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 391165005554 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 391165005555 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 391165005556 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 391165005557 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 391165005558 active site 391165005559 HIGH motif; other site 391165005560 dimer interface [polypeptide binding]; other site 391165005561 KMSKS motif; other site 391165005562 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 391165005563 RNA binding surface [nucleotide binding]; other site 391165005564 ornithine--oxo-acid transaminase; Reviewed; Region: rocD; PRK00854 391165005565 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 391165005566 inhibitor-cofactor binding pocket; inhibition site 391165005567 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165005568 catalytic residue [active] 391165005569 Nucleoside 2-deoxyribosyltransferase; Region: Nuc_deoxyrib_tr; cl16918 391165005570 Protein of unknown function; Region: DUF3971; pfam13116 391165005571 AsmA-like C-terminal region; Region: AsmA_2; cl15864 391165005572 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 391165005573 metal binding triad; other site 391165005574 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 391165005575 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 391165005576 metal binding triad; other site 391165005577 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 391165005578 amino acid transporter; Region: 2A0306; TIGR00909 391165005579 Spore germination protein; Region: Spore_permease; cl15802 391165005580 Spore germination protein; Region: Spore_permease; cl15802 391165005581 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 391165005582 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 391165005583 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 391165005584 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 391165005585 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 391165005586 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 391165005587 ATP-grasp domain; Region: ATP-grasp_4; cl03087 391165005588 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 391165005589 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 391165005590 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 391165005591 carboxyltransferase (CT) interaction site; other site 391165005592 biotinylation site [posttranslational modification]; other site 391165005593 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 391165005594 trimer interface [polypeptide binding]; other site 391165005595 active site 391165005596 dimer interface [polypeptide binding]; other site 391165005597 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 391165005598 ThiS interaction site; other site 391165005599 putative active site [active] 391165005600 tetramer interface [polypeptide binding]; other site 391165005601 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 391165005602 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 391165005603 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 391165005604 Zinc-finger domain; Region: zf-CHCC; cl01821 391165005605 DNA polymerase I; Provisional; Region: PRK05755 391165005606 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 391165005607 active site 391165005608 metal binding site 1 [ion binding]; metal-binding site 391165005609 putative 5' ssDNA interaction site; other site 391165005610 metal binding site 3; metal-binding site 391165005611 metal binding site 2 [ion binding]; metal-binding site 391165005612 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 391165005613 putative DNA binding site [nucleotide binding]; other site 391165005614 putative metal binding site [ion binding]; other site 391165005615 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 391165005616 active site 391165005617 catalytic site [active] 391165005618 substrate binding site [chemical binding]; other site 391165005619 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 391165005620 active site 391165005621 DNA binding site [nucleotide binding] 391165005622 catalytic site [active] 391165005623 Pirin-related protein [General function prediction only]; Region: COG1741 391165005624 Cupin domain; Region: Cupin_2; cl09118 391165005625 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 391165005626 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 391165005627 Helix-turn-helix domains; Region: HTH; cl00088 391165005628 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 391165005629 dimerization interface [polypeptide binding]; other site 391165005630 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 391165005631 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 391165005632 tetramer interface [polypeptide binding]; other site 391165005633 heme binding pocket [chemical binding]; other site 391165005634 NADPH binding site [chemical binding]; other site 391165005635 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 391165005636 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 391165005637 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 391165005638 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 391165005639 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 391165005640 active site 391165005641 phosphorylation site [posttranslational modification] 391165005642 intermolecular recognition site; other site 391165005643 dimerization interface [polypeptide binding]; other site 391165005644 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 391165005645 DNA binding site [nucleotide binding] 391165005646 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 391165005647 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 391165005648 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 391165005649 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 391165005650 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 391165005651 dimer interface [polypeptide binding]; other site 391165005652 phosphorylation site [posttranslational modification] 391165005653 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 391165005654 ATP binding site [chemical binding]; other site 391165005655 Mg2+ binding site [ion binding]; other site 391165005656 G-X-G motif; other site 391165005657 OpgC protein; Region: OpgC_C; cl00792 391165005658 Acyltransferase family; Region: Acyl_transf_3; pfam01757 391165005659 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 391165005660 Protein export membrane protein; Region: SecD_SecF; cl14618 391165005661 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 391165005662 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 391165005663 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 391165005664 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 391165005665 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 391165005666 putative NADP binding site [chemical binding]; other site 391165005667 putative substrate binding site [chemical binding]; other site 391165005668 active site 391165005669 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 391165005670 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 391165005671 active site 391165005672 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 391165005673 active site lid residues [active] 391165005674 substrate binding pocket [chemical binding]; other site 391165005675 catalytic residues [active] 391165005676 substrate-Mg2+ binding site; other site 391165005677 aspartate-rich region 1; other site 391165005678 aspartate-rich region 2; other site 391165005679 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 391165005680 active site lid residues [active] 391165005681 substrate binding pocket [chemical binding]; other site 391165005682 catalytic residues [active] 391165005683 substrate-Mg2+ binding site; other site 391165005684 aspartate-rich region 1; other site 391165005685 aspartate-rich region 2; other site 391165005686 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 391165005687 active site 391165005688 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 391165005689 dimer interface [polypeptide binding]; other site 391165005690 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 391165005691 Ligand Binding Site [chemical binding]; other site 391165005692 Molecular Tunnel; other site 391165005693 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 391165005694 putative ADP-binding pocket [chemical binding]; other site 391165005695 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 391165005696 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 391165005697 putative active site [active] 391165005698 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 391165005699 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 391165005700 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 391165005701 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 391165005702 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 391165005703 Walker A/P-loop; other site 391165005704 ATP binding site [chemical binding]; other site 391165005705 Q-loop/lid; other site 391165005706 ABC transporter signature motif; other site 391165005707 Walker B; other site 391165005708 D-loop; other site 391165005709 H-loop/switch region; other site 391165005710 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 391165005711 The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE). The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane...; Region: ABC_NikE_OppD_transporters; cd03257 391165005712 Walker A/P-loop; other site 391165005713 ATP binding site [chemical binding]; other site 391165005714 Q-loop/lid; other site 391165005715 ABC transporter signature motif; other site 391165005716 Walker B; other site 391165005717 D-loop; other site 391165005718 H-loop/switch region; other site 391165005719 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 391165005720 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 391165005721 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 391165005722 dimer interface [polypeptide binding]; other site 391165005723 conserved gate region; other site 391165005724 putative PBP binding loops; other site 391165005725 ABC-ATPase subunit interface; other site 391165005726 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 391165005727 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 391165005728 dimer interface [polypeptide binding]; other site 391165005729 conserved gate region; other site 391165005730 ABC-ATPase subunit interface; other site 391165005731 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 391165005732 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 391165005733 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 391165005734 active site 391165005735 Cytochrome c; Region: Cytochrom_C; cl11414 391165005736 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 391165005737 Ligand binding site; other site 391165005738 oligomer interface; other site 391165005739 prephenate dehydratase; Provisional; Region: PRK11899 391165005740 Prephenate dehydratase; Region: PDT; pfam00800 391165005741 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 391165005742 putative L-Phe binding site [chemical binding]; other site 391165005743 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 391165005744 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 391165005745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 391165005746 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 391165005747 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 391165005748 Predicted transcriptional regulator [Transcription]; Region: COG1395 391165005749 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 391165005750 non-specific DNA binding site [nucleotide binding]; other site 391165005751 salt bridge; other site 391165005752 sequence-specific DNA binding site [nucleotide binding]; other site 391165005753 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 391165005754 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 391165005755 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 391165005756 active site 391165005757 phosphorylation site [posttranslational modification] 391165005758 intermolecular recognition site; other site 391165005759 dimerization interface [polypeptide binding]; other site 391165005760 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 391165005761 DNA binding site [nucleotide binding] 391165005762 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 391165005763 putative catalytic site [active] 391165005764 putative phosphate binding site [ion binding]; other site 391165005765 active site 391165005766 metal binding site A [ion binding]; metal-binding site 391165005767 DNA binding site [nucleotide binding] 391165005768 putative AP binding site [nucleotide binding]; other site 391165005769 putative metal binding site B [ion binding]; other site 391165005770 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 391165005771 Peptidase C26; Region: Peptidase_C26; pfam07722 391165005772 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 391165005773 catalytic triad [active] 391165005774 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 391165005775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165005776 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 391165005777 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 391165005778 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 391165005779 Phosphotransferase enzyme family; Region: APH; pfam01636 391165005780 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 391165005781 Substrate binding site; other site 391165005782 metal-binding site 391165005783 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 391165005784 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 391165005785 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 391165005786 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 391165005787 Family description; Region: UvrD_C_2; cl15862 391165005788 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 391165005789 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 391165005790 catalytic residues [active] 391165005791 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 391165005792 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 391165005793 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 391165005794 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 391165005795 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 391165005796 substrate binding site [chemical binding]; other site 391165005797 active site 391165005798 catalytic residues [active] 391165005799 heterodimer interface [polypeptide binding]; other site 391165005800 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 391165005801 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 391165005802 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165005803 catalytic residue [active] 391165005804 malate dehydrogenase; Provisional; Region: PRK13529 391165005805 Malic enzyme, N-terminal domain; Region: malic; pfam00390 391165005806 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 391165005807 NAD(P) binding site [chemical binding]; other site 391165005808 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric; Region: PRAI; cd00405 391165005809 active site 391165005810 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 contains two...; Region: OMP_decarboxylase_like; cd04725 391165005811 active site 391165005812 dimer interface [polypeptide binding]; other site 391165005813 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 391165005814 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 391165005815 IHF dimer interface [polypeptide binding]; other site 391165005816 IHF - DNA interface [nucleotide binding]; other site 391165005817 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 391165005818 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 391165005819 tandem repeat interface [polypeptide binding]; other site 391165005820 oligomer interface [polypeptide binding]; other site 391165005821 active site residues [active] 391165005822 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 391165005823 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 consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 391165005824 RNA binding site [nucleotide binding]; other site 391165005825 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 391165005826 RNA binding site [nucleotide binding]; other site 391165005827 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 of...; Region: S1_RPS1_repeat_ec3; cd05688 391165005828 RNA binding site [nucleotide binding]; other site 391165005829 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 391165005830 RNA binding site [nucleotide binding]; other site 391165005831 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 391165005832 RNA binding site [nucleotide binding]; other site 391165005833 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 of...; Region: S1_RPS1_repeat_ec6; cd05691 391165005834 RNA binding site [nucleotide binding]; other site 391165005835 cytidylate kinase; Provisional; Region: cmk; PRK00023 391165005836 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 391165005837 CMP-binding site; other site 391165005838 The sites determining sugar specificity; other site 391165005839 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 391165005840 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 391165005841 hinge; other site 391165005842 active site 391165005843 TIGR02300 family protein; Region: FYDLN_acid 391165005844 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 391165005845 putative hydrophobic ligand binding site [chemical binding]; other site 391165005846 protein interface [polypeptide binding]; other site 391165005847 gate; other site 391165005848 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 391165005849 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 391165005850 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 391165005851 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 391165005852 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 391165005853 Helix-turn-helix domains; Region: HTH; cl00088 391165005854 Bacterial transcriptional repressor; Region: TetR; pfam13972 391165005855 polyphosphate kinase; Provisional; Region: PRK05443 391165005856 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 391165005857 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 391165005858 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 391165005859 putative domain interface [polypeptide binding]; other site 391165005860 putative active site [active] 391165005861 catalytic site [active] 391165005862 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 391165005863 putative domain interface [polypeptide binding]; other site 391165005864 putative active site [active] 391165005865 catalytic site [active] 391165005866 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165005867 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 391165005868 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 391165005869 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 391165005870 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 391165005871 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 391165005872 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 391165005873 dimerization interface [polypeptide binding]; other site 391165005874 putative ATP binding site [chemical binding]; other site 391165005875 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 391165005876 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 391165005877 active site 391165005878 substrate binding site [chemical binding]; other site 391165005879 cosubstrate binding site; other site 391165005880 catalytic site [active] 391165005881 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 391165005882 active site 391165005883 multimer interface [polypeptide binding]; other site 391165005884 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 391165005885 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 391165005886 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 391165005887 ABC transporter; Region: ABC_tran_2; pfam12848 391165005888 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 391165005889 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 391165005890 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 391165005891 putative homodimer interface [polypeptide binding]; other site 391165005892 KOW motif; Region: KOW; cl00354 391165005893 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 391165005894 Dehydratase family; Region: ILVD_EDD; cl00340 391165005895 6-phosphogluconate dehydratase; Region: edd; TIGR01196 391165005896 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 391165005897 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 391165005898 active site 391165005899 intersubunit interface [polypeptide binding]; other site 391165005900 catalytic residue [active] 391165005901 Protein of unknown function DUF45; Region: DUF45; cl00636 391165005902 Flagellin N-methylase; Region: FliB; cl00497 391165005903 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 391165005904 putative amphipathic alpha helix; other site 391165005905 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 391165005906 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 391165005907 substrate binding site [chemical binding]; other site 391165005908 ATP binding site [chemical binding]; other site 391165005909 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 391165005910 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 391165005911 tartrate dehydrogenase; Provisional; Region: PRK08194 391165005912 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 391165005913 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 391165005914 Na binding site [ion binding]; other site 391165005915 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 391165005916 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 391165005917 dinuclear metal binding motif [ion binding]; other site 391165005918 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 391165005919 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 391165005920 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 391165005921 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 391165005922 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 391165005923 alpha subunit interaction interface [polypeptide binding]; other site 391165005924 Walker A motif; other site 391165005925 ATP binding site [chemical binding]; other site 391165005926 Walker B motif; other site 391165005927 inhibitor binding site; inhibition site 391165005928 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 391165005929 ATP synthase; Region: ATP-synt; cl00365 391165005930 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 391165005931 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 391165005932 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 391165005933 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 391165005934 beta subunit interaction interface [polypeptide binding]; other site 391165005935 Walker A motif; other site 391165005936 ATP binding site [chemical binding]; other site 391165005937 Walker B motif; other site 391165005938 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 391165005939 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 391165005940 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 391165005941 primosome assembly protein PriA; Validated; Region: PRK05580 391165005942 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 391165005943 ATP binding site [chemical binding]; other site 391165005944 putative Mg++ binding site [ion binding]; other site 391165005945 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 391165005946 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 391165005947 active site 391165005948 DNA binding site [nucleotide binding] 391165005949 Int/Topo IB signature motif; other site 391165005950 Protein of unknown function (DUF541); Region: SIMPL; cl01077 391165005951 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 the...; Region: PNPsynthase; cd00003 391165005952 active site 391165005953 hydrophilic channel; other site 391165005954 dimerization interface [polypeptide binding]; other site 391165005955 catalytic residues [active] 391165005956 active site lid [active] 391165005957 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 391165005958 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 391165005959 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 391165005960 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165005961 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 391165005962 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 391165005963 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 391165005964 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 391165005965 E3 interaction surface; other site 391165005966 lipoyl attachment site [posttranslational modification]; other site 391165005967 e3 binding domain; Region: E3_binding; pfam02817 391165005968 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 391165005969 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 391165005970 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 391165005971 TPP-binding site [chemical binding]; other site 391165005972 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 391165005973 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 391165005974 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165005975 CoA-ligase; Region: Ligase_CoA; cl02894 391165005976 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 391165005977 ATP-grasp domain; Region: ATP-grasp_4; cl03087 391165005978 CoA-ligase; Region: Ligase_CoA; cl02894 391165005979 malate dehydrogenase; Reviewed; Region: PRK06223 391165005980 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 391165005981 NAD(P) binding site [chemical binding]; other site 391165005982 dimer interface [polypeptide binding]; other site 391165005983 tetramer (dimer of dimers) interface [polypeptide binding]; other site 391165005984 substrate binding site [chemical binding]; other site 391165005985 Predicted ATPase [General function prediction only]; Region: COG1485 391165005986 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl15773 391165005987 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 391165005988 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 391165005989 putative substrate translocation pore; other site 391165005990 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 391165005991 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 391165005992 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 391165005993 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 391165005994 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 391165005995 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165005996 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 391165005997 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 391165005998 putative SdhC subunit interface [polypeptide binding]; other site 391165005999 putative proximal heme binding site [chemical binding]; other site 391165006000 putative Iron-sulfur protein interface [polypeptide binding]; other site 391165006001 putative proximal quinone binding site; other site 391165006002 succinate dehydrogenase, cytochrome b subunit family; Provisional; Region: PLN00126 391165006003 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 391165006004 Iron-sulfur protein interface; other site 391165006005 proximal quinone binding site [chemical binding]; other site 391165006006 SdhD (CybS) interface [polypeptide binding]; other site 391165006007 proximal heme binding site [chemical binding]; other site 391165006008 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 391165006009 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165006010 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 391165006011 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 391165006012 Helix-turn-helix domains; Region: HTH; cl00088 391165006013 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 391165006014 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 391165006015 Walker A motif; other site 391165006016 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 391165006017 MoaE interaction surface [polypeptide binding]; other site 391165006018 MoeB interaction surface [polypeptide binding]; other site 391165006019 thiocarboxylated glycine; other site 391165006020 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 391165006021 MoaD interaction [polypeptide binding]; other site 391165006022 active site residues [active] 391165006023 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 391165006024 metal-binding site [ion binding] 391165006025 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 391165006026 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 391165006027 metal-binding site [ion binding] 391165006028 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 391165006029 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 391165006030 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 391165006031 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 391165006032 DNA binding residues [nucleotide binding] 391165006033 dimer interface [polypeptide binding]; other site 391165006034 copper binding site [ion binding]; other site 391165006035 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 391165006036 Ca2+ binding site [ion binding]; other site 391165006037 EF-hand domain pair; Region: EF_hand_5; pfam13499 391165006038 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 391165006039 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165006040 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 391165006041 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 391165006042 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 391165006043 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 391165006044 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 391165006045 Ligand binding site [chemical binding]; other site 391165006046 Electron transfer flavoprotein domain; Region: ETF; pfam01012 391165006047 Biofilm formation and stress response factor; Region: BsmA; cl01794 391165006048 pyruvate phosphate dikinase; Provisional; Region: PRK09279 391165006049 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 391165006050 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 391165006051 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 391165006052 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 391165006053 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 391165006054 putative active site [active] 391165006055 Rv0623-like transcription factor; Region: PSK_trans_fac; cl01834 391165006056 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 391165006057 dimer interface [polypeptide binding]; other site 391165006058 motif 1; other site 391165006059 active site 391165006060 motif 2; other site 391165006061 motif 3; other site 391165006062 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 391165006063 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; cl01353 391165006064 Helix-turn-helix domains; Region: HTH; cl00088 391165006065 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 391165006066 dimerization interface [polypeptide binding]; other site 391165006067 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 391165006068 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 391165006069 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 391165006070 Active site cavity [active] 391165006071 catalytic acid [active] 391165006072 PAS fold; Region: PAS_4; pfam08448 391165006073 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 391165006074 putative active site [active] 391165006075 heme pocket [chemical binding]; other site 391165006076 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 391165006077 PAS fold; Region: PAS_3; pfam08447 391165006078 putative active site [active] 391165006079 heme pocket [chemical binding]; other site 391165006080 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 391165006081 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 391165006082 putative active site [active] 391165006083 heme pocket [chemical binding]; other site 391165006084 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 391165006085 dimer interface [polypeptide binding]; other site 391165006086 phosphorylation site [posttranslational modification] 391165006087 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 391165006088 ATP binding site [chemical binding]; other site 391165006089 Mg2+ binding site [ion binding]; other site 391165006090 G-X-G motif; other site 391165006091 Response regulator receiver domain; Region: Response_reg; pfam00072 391165006092 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 391165006093 active site 391165006094 phosphorylation site [posttranslational modification] 391165006095 intermolecular recognition site; other site 391165006096 dimerization interface [polypeptide binding]; other site 391165006097 Uncharacterized protein family (UPF0160); Region: UPF0160; cl01749 391165006098 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 391165006099 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 391165006100 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 391165006101 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 391165006102 active site 391165006103 FMN binding site [chemical binding]; other site 391165006104 substrate binding site [chemical binding]; other site 391165006105 3Fe-4S cluster binding site [ion binding]; other site 391165006106 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cl00239 391165006107 domain_subunit interface; other site 391165006108 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 391165006109 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 391165006110 Glutamine amidotransferases class-II (Gn-AT)_GlxB-type. GlxB is a glutamine amidotransferase-like protein of unknown function found in bacteria and archaea. GlxB has a structural fold similar to that of other class II glutamine amidotransferases...; Region: GlxB; cd01907 391165006111 putative active site [active] 391165006112 Bacterial SH3 domain; Region: SH3_3; cl02551 391165006113 Bacterial SH3 domain; Region: SH3_3; cl02551 391165006114 DsrE/DsrF-like family; Region: DrsE; cl00672 391165006115 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 391165006116 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 391165006117 ATP binding site [chemical binding]; other site 391165006118 substrate interface [chemical binding]; other site 391165006119 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 391165006120 Ligand Binding Site [chemical binding]; other site 391165006121 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 391165006122 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 391165006123 G1 box; other site 391165006124 putative GEF interaction site [polypeptide binding]; other site 391165006125 GTP/Mg2+ binding site [chemical binding]; other site 391165006126 Switch I region; other site 391165006127 G2 box; other site 391165006128 G3 box; other site 391165006129 Switch II region; other site 391165006130 G4 box; other site 391165006131 G5 box; other site 391165006132 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 391165006133 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 391165006134 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 391165006135 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165006136 Walker A/P-loop; other site 391165006137 ATP binding site [chemical binding]; other site 391165006138 Q-loop/lid; other site 391165006139 ABC transporter signature motif; other site 391165006140 Walker B; other site 391165006141 D-loop; other site 391165006142 H-loop/switch region; other site 391165006143 TOBE domain; Region: TOBE_2; cl01440 391165006144 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 391165006145 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 391165006146 putative transporter; Provisional; Region: PRK10504 391165006147 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 391165006148 putative substrate translocation pore; other site 391165006149 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 391165006150 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165006151 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 391165006152 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 391165006153 FMN binding site [chemical binding]; other site 391165006154 active site 391165006155 substrate binding site [chemical binding]; other site 391165006156 catalytic residue [active] 391165006157 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 391165006158 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 391165006159 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 391165006160 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 391165006161 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 391165006162 Fusaric acid resistance protein family; Region: FUSC; pfam04632 391165006163 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 391165006164 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 391165006165 Helix-turn-helix domains; Region: HTH; cl00088 391165006166 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 391165006167 Nitrogen regulatory protein P-II; Region: P-II; cl00412 391165006168 Nitrogen regulatory protein P-II; Region: P-II; smart00938 391165006169 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165006170 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 391165006171 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165006172 active site 391165006173 probable Rubsico expression protein CbbX; Region: cbbX_cfxQ; TIGR02880 391165006174 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 391165006175 Walker A motif; other site 391165006176 ATP binding site [chemical binding]; other site 391165006177 Walker B motif; other site 391165006178 arginine finger; other site 391165006179 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 391165006180 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 391165006181 substrate binding site [chemical binding]; other site 391165006182 hexamer interface [polypeptide binding]; other site 391165006183 metal binding site [ion binding]; metal-binding site 391165006184 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 391165006185 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 391165006186 active site 391165006187 catalytic site [active] 391165006188 substrate binding site [chemical binding]; other site 391165006189 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 391165006190 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 391165006191 CoA-binding site [chemical binding]; other site 391165006192 ATP-binding [chemical binding]; other site 391165006193 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 391165006194 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 391165006195 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 391165006196 shikimate binding site; other site 391165006197 NAD(P) binding site [chemical binding]; other site 391165006198 Major Facilitator Superfamily; Region: MFS_1; pfam07690 391165006199 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 391165006200 putative substrate translocation pore; other site 391165006201 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 391165006202 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 391165006203 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 391165006204 transmembrane helices; other site 391165006205 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 391165006206 Major Facilitator Superfamily; Region: MFS_1; pfam07690 391165006207 putative substrate translocation pore; other site 391165006208 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 391165006209 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 391165006210 intermolecular recognition site; other site 391165006211 active site 391165006212 dimerization interface [polypeptide binding]; other site 391165006213 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 391165006214 DNA binding site [nucleotide binding] 391165006215 putative glycosyl transferase; Provisional; Region: PRK10018 391165006216 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 391165006217 Probable Catalytic site; other site 391165006218 metal-binding site 391165006219 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 391165006220 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 391165006221 Probable Catalytic site; other site 391165006222 metal-binding site 391165006223 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 391165006224 binding surface 391165006225 TPR motif; other site 391165006226 TPR repeat; Region: TPR_11; pfam13414 391165006227 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 391165006228 binding surface 391165006229 TPR motif; other site 391165006230 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 391165006231 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 391165006232 TPR repeat; Region: TPR_11; pfam13414 391165006233 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 391165006234 binding surface 391165006235 TPR motif; other site 391165006236 Tetratricopeptide repeat; Region: TPR_12; pfam13424 391165006237 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 391165006238 binding surface 391165006239 TPR motif; other site 391165006240 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 391165006241 intersubunit interface [polypeptide binding]; other site 391165006242 active site 391165006243 Zn2+ binding site [ion binding]; other site 391165006244 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 391165006245 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; cl01801 391165006246 SelR domain; Region: SelR; pfam01641 391165006247 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 391165006248 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 391165006249 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 391165006250 CysD dimerization site [polypeptide binding]; other site 391165006251 G1 box; other site 391165006252 putative GEF interaction site [polypeptide binding]; other site 391165006253 GTP/Mg2+ binding site [chemical binding]; other site 391165006254 Switch I region; other site 391165006255 G2 box; other site 391165006256 G3 box; other site 391165006257 Switch II region; other site 391165006258 G4 box; other site 391165006259 G5 box; other site 391165006260 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 391165006261 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 391165006262 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 important for the assimilation of...; Region: APSK; cd02027 391165006263 ligand-binding site [chemical binding]; other site 391165006264 UreD urease accessory protein; Region: UreD; cl00530 391165006265 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 391165006266 alpha-gamma subunit interface [polypeptide binding]; other site 391165006267 beta-gamma subunit interface [polypeptide binding]; other site 391165006268 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 391165006269 gamma-beta subunit interface [polypeptide binding]; other site 391165006270 alpha-beta subunit interface [polypeptide binding]; other site 391165006271 urease subunit alpha; Reviewed; Region: ureC; PRK13207 391165006272 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 391165006273 subunit interactions [polypeptide binding]; other site 391165006274 active site 391165006275 flap region; other site 391165006276 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 391165006277 dimer interface [polypeptide binding]; other site 391165006278 catalytic residues [active] 391165006279 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 391165006280 UreF; Region: UreF; pfam01730 391165006281 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165006282 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 391165006283 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 391165006284 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 391165006285 RmuC family; Region: RmuC; pfam02646 391165006286 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 391165006287 amino acid transporter; Region: 2A0306; TIGR00909 391165006288 Spore germination protein; Region: Spore_permease; cl15802 391165006289 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 391165006290 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 391165006291 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 391165006292 active site 391165006293 catalytic site [active] 391165006294 Predicted integral membrane protein [Function unknown]; Region: COG0392 391165006295 Uncharacterized conserved protein [Function unknown]; Region: COG2898 391165006296 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 391165006297 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 391165006298 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 391165006299 active site 391165006300 nucleotide binding site [chemical binding]; other site 391165006301 HIGH motif; other site 391165006302 KMSKS motif; other site 391165006303 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 391165006304 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165006305 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 391165006306 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165006307 tellurite resistance protein terB; Region: terB; cd07176 391165006308 putative metal binding site [ion binding]; other site 391165006309 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 protein; Region: CSP_CDS; cd04458 391165006310 DNA-binding site [nucleotide binding]; DNA binding site 391165006311 RNA-binding motif; other site 391165006312 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 391165006313 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 391165006314 ring oligomerisation interface [polypeptide binding]; other site 391165006315 ATP/Mg binding site [chemical binding]; other site 391165006316 stacking interactions; other site 391165006317 hinge regions; other site 391165006318 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 391165006319 oligomerisation interface [polypeptide binding]; other site 391165006320 mobile loop; other site 391165006321 roof hairpin; other site 391165006322 Usg-like family; Region: Usg; cl11567 391165006323 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 391165006324 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 391165006325 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 391165006326 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 391165006327 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 391165006328 active site 391165006329 catalytic triad [active] 391165006330 oxyanion hole [active] 391165006331 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 391165006332 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 391165006333 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 391165006334 UbiA prenyltransferase family; Region: UbiA; cl00337 391165006335 Predicted methyltransferase [General function prediction only]; Region: COG3897 391165006336 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 391165006337 Ligand Binding Site [chemical binding]; other site 391165006338 Protein of unknown function (DUF952); Region: DUF952; cl01393 391165006339 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 391165006340 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 391165006341 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 391165006342 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 391165006343 active site 391165006344 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 391165006345 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 391165006346 S-adenosylmethionine binding site [chemical binding]; other site 391165006347 SurA N-terminal domain; Region: SurA_N_3; cl07813 391165006348 PPIC-type PPIASE domain; Region: Rotamase; cl08278 391165006349 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1934 391165006350 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 391165006351 OstA-like protein; Region: OstA; cl00844 391165006352 Organic solvent tolerance protein; Region: OstA_C; pfam04453 391165006353 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 391165006354 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 391165006355 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 391165006356 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 391165006357 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 391165006358 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 391165006359 active site 391165006360 multifunctional aminopeptidase A; Provisional; Region: PRK00913 391165006361 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 391165006362 interface (dimer of trimers) [polypeptide binding]; other site 391165006363 Substrate-binding/catalytic site; other site 391165006364 Zn-binding sites [ion binding]; other site 391165006365 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 391165006366 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 391165006367 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 391165006368 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 391165006369 catalytic site [active] 391165006370 G-X2-G-X-G-K; other site 391165006371 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165006372 NAD(P) binding site [chemical binding]; other site 391165006373 active site 391165006374 YceG-like family; Region: YceG; pfam02618 391165006375 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 391165006376 dimerization interface [polypeptide binding]; other site 391165006377 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 391165006378 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 391165006379 dimer interface [polypeptide binding]; other site 391165006380 active site 391165006381 Phosphopantetheine attachment site; Region: PP-binding; cl09936 391165006382 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 391165006383 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165006384 NAD(P) binding site [chemical binding]; other site 391165006385 active site 391165006386 Acyl transferase domain; Region: Acyl_transf_1; cl08282 391165006387 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 391165006388 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 391165006389 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 391165006390 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 391165006391 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 391165006392 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 391165006393 replicative DNA helicase; Provisional; Region: PRK09165 391165006394 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 391165006395 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 391165006396 Walker A motif; other site 391165006397 ATP binding site [chemical binding]; other site 391165006398 Walker B motif; other site 391165006399 DNA binding loops [nucleotide binding] 391165006400 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 391165006401 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 391165006402 active site 391165006403 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 391165006404 dimer interface [polypeptide binding]; other site 391165006405 substrate binding site [chemical binding]; other site 391165006406 catalytic residues [active] 391165006407 Permease; Region: Permease; cl00510 391165006408 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 391165006409 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165006410 Walker A/P-loop; other site 391165006411 ATP binding site [chemical binding]; other site 391165006412 Q-loop/lid; other site 391165006413 ABC transporter signature motif; other site 391165006414 Walker B; other site 391165006415 D-loop; other site 391165006416 H-loop/switch region; other site 391165006417 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 391165006418 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 391165006419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165006420 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 391165006421 S-adenosylmethionine binding site [chemical binding]; other site 391165006422 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 391165006423 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 391165006424 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 391165006425 active site 391165006426 excinuclease ABC subunit B; Provisional; Region: PRK05298 391165006427 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 391165006428 ATP binding site [chemical binding]; other site 391165006429 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 391165006430 nucleotide binding region [chemical binding]; other site 391165006431 ATP-binding site [chemical binding]; other site 391165006432 Ultra-violet resistance protein B; Region: UvrB; pfam12344 391165006433 UvrB/uvrC motif; Region: UVR; pfam02151 391165006434 pteridine reductase; Provisional; Region: PRK09135 391165006435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165006436 NAD(P) binding site [chemical binding]; other site 391165006437 active site 391165006438 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 391165006439 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 391165006440 GIY-YIG motif/motif A; other site 391165006441 active site 391165006442 catalytic site [active] 391165006443 putative DNA binding site [nucleotide binding]; other site 391165006444 metal binding site [ion binding]; metal-binding site 391165006445 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 391165006446 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 391165006447 nucleotide binding site/active site [active] 391165006448 HIT family signature motif; other site 391165006449 catalytic residue [active] 391165006450 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 391165006451 metal binding site [ion binding]; metal-binding site 391165006452 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 391165006453 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 391165006454 substrate binding site [chemical binding]; other site 391165006455 glutamase interaction surface [polypeptide binding]; other site 391165006456 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 391165006457 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 391165006458 catalytic residues [active] 391165006459 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 391165006460 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 391165006461 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 391165006462 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 391165006463 putative active site [active] 391165006464 oxyanion strand; other site 391165006465 catalytic triad [active] 391165006466 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 391165006467 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 391165006468 putative active site pocket [active] 391165006469 4-fold oligomerization interface [polypeptide binding]; other site 391165006470 metal binding residues [ion binding]; metal-binding site 391165006471 3-fold/trimer interface [polypeptide binding]; other site 391165006472 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 391165006473 active site 391165006474 HslU subunit interaction site [polypeptide binding]; other site 391165006475 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 391165006476 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 391165006477 Walker A motif; other site 391165006478 ATP binding site [chemical binding]; other site 391165006479 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 391165006480 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 391165006481 Fe-S metabolism associated domain; Region: SufE; cl00951 391165006482 HAD-superfamily class IIA hydrolase, TIGR01459; Region: HAD-SF-IIA-hyp4 391165006483 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 391165006484 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 391165006485 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 391165006486 Helix-turn-helix domains; Region: HTH; cl00088 391165006487 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 391165006488 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 391165006489 active site 391165006490 phosphorylation site [posttranslational modification] 391165006491 intermolecular recognition site; other site 391165006492 dimerization interface [polypeptide binding]; other site 391165006493 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 391165006494 DNA binding site [nucleotide binding] 391165006495 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 391165006496 dimerization interface [polypeptide binding]; other site 391165006497 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 391165006498 dimer interface [polypeptide binding]; other site 391165006499 phosphorylation site [posttranslational modification] 391165006500 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 391165006501 ATP binding site [chemical binding]; other site 391165006502 Mg2+ binding site [ion binding]; other site 391165006503 G-X-G motif; other site 391165006504 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 391165006505 putative acyl-acceptor binding pocket; other site 391165006506 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 391165006507 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 391165006508 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 391165006509 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 391165006510 putative acyl-acceptor binding pocket; other site 391165006511 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 391165006512 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 391165006513 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 391165006514 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 391165006515 putative active site [active] 391165006516 putative metal binding site [ion binding]; other site 391165006517 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 391165006518 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 391165006519 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 391165006520 Subunit III/VIIa interface [polypeptide binding]; other site 391165006521 Phospholipid binding site [chemical binding]; other site 391165006522 Subunit I/III interface [polypeptide binding]; other site 391165006523 Subunit III/VIb interface [polypeptide binding]; other site 391165006524 Subunit III/VIa interface; other site 391165006525 Subunit III/Vb interface [polypeptide binding]; other site 391165006526 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 391165006527 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 391165006528 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 391165006529 active site 391165006530 Zn binding site [ion binding]; other site 391165006531 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 391165006532 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 391165006533 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165006534 catalytic residue [active] 391165006535 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 391165006536 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 391165006537 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 391165006538 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 391165006539 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 391165006540 Tim44-like domain; Region: Tim44; cl09208 391165006541 UbiA prenyltransferase family; Region: UbiA; cl00337 391165006542 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 391165006543 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 391165006544 Subunit I/III interface [polypeptide binding]; other site 391165006545 D-pathway; other site 391165006546 Subunit I/VIIc interface [polypeptide binding]; other site 391165006547 Subunit I/IV interface [polypeptide binding]; other site 391165006548 Subunit I/II interface [polypeptide binding]; other site 391165006549 Low-spin heme (heme a) binding site [chemical binding]; other site 391165006550 Subunit I/VIIa interface [polypeptide binding]; other site 391165006551 Subunit I/VIa interface [polypeptide binding]; other site 391165006552 Dimer interface; other site 391165006553 Putative water exit pathway; other site 391165006554 Binuclear center (heme a3/CuB) [ion binding]; other site 391165006555 K-pathway; other site 391165006556 Subunit I/Vb interface [polypeptide binding]; other site 391165006557 Putative proton exit pathway; other site 391165006558 Subunit I/VIb interface; other site 391165006559 Subunit I/VIc interface [polypeptide binding]; other site 391165006560 Electron transfer pathway; other site 391165006561 Subunit I/VIIIb interface [polypeptide binding]; other site 391165006562 Subunit I/VIIb interface [polypeptide binding]; other site 391165006563 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 391165006564 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00139 391165006565 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 391165006566 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 391165006567 S-adenosylmethionine binding site [chemical binding]; other site 391165006568 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 protein; Region: CSP_CDS; cd04458 391165006569 DNA-binding site [nucleotide binding]; DNA binding site 391165006570 RNA-binding motif; other site 391165006571 GcrA cell cycle regulator; Region: GcrA; cl11564 391165006572 GcrA cell cycle regulator; Region: GcrA; cl11564 391165006573 NlpC/P60 family; Region: NLPC_P60; cl11438 391165006574 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 391165006575 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 391165006576 intersubunit interface [polypeptide binding]; other site 391165006577 active site 391165006578 Zn2+ binding site [ion binding]; other site 391165006579 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1791 391165006580 Cupin domain; Region: Cupin_2; cl09118 391165006581 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 391165006582 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 391165006583 motif II; other site 391165006584 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 391165006585 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 391165006586 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 391165006587 dimerization interface [polypeptide binding]; other site 391165006588 domain crossover interface; other site 391165006589 redox-dependent activation switch; other site 391165006590 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 391165006591 putative homodimer interface [polypeptide binding]; other site 391165006592 putative homotetramer interface [polypeptide binding]; other site 391165006593 putative metal binding site [ion binding]; other site 391165006594 putative homodimer-homodimer interface [polypeptide binding]; other site 391165006595 putative allosteric switch controlling residues; other site 391165006596 serine acetyltransferase; Provisional; Region: cysE; PRK11132 391165006597 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 391165006598 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 391165006599 trimer interface [polypeptide binding]; other site 391165006600 active site 391165006601 substrate binding site [chemical binding]; other site 391165006602 CoA binding site [chemical binding]; other site 391165006603 ornithine carbamoyltransferase; Provisional; Region: PRK00779 391165006604 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 391165006605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165006606 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 391165006607 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 391165006608 inhibitor-cofactor binding pocket; inhibition site 391165006609 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165006610 catalytic residue [active] 391165006611 RecX family; Region: RecX; cl00936 391165006612 GtrA-like protein; Region: GtrA; cl00971 391165006613 hypothetical protein; Provisional; Region: PRK07233 391165006614 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165006615 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165006616 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 391165006617 NAD(P) binding site [chemical binding]; other site 391165006618 active site 391165006619 short chain dehydrogenase; Provisional; Region: PRK08251 391165006620 classical (c) SDRs; Region: SDR_c; cd05233 391165006621 NAD(P) binding site [chemical binding]; other site 391165006622 active site 391165006623 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 391165006624 FAD binding domain; Region: FAD_binding_4; pfam01565 391165006625 hypothetical protein; Validated; Region: PRK08238 391165006626 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 391165006627 UbiA prenyltransferase family; Region: UbiA; cl00337 391165006628 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 391165006629 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 391165006630 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 391165006631 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 391165006632 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 391165006633 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 391165006634 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 391165006635 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 391165006636 DNA binding residues [nucleotide binding] 391165006637 DNA primase, catalytic core; Region: dnaG; TIGR01391 391165006638 CHC2 zinc finger; Region: zf-CHC2; cl15369 391165006639 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 391165006640 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 391165006641 active site 391165006642 metal binding site [ion binding]; metal-binding site 391165006643 interdomain interaction site; other site 391165006644 GatB domain; Region: GatB_Yqey; cl11497 391165006645 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 391165006646 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 391165006647 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 391165006648 catalytic site [active] 391165006649 subunit interface [polypeptide binding]; other site 391165006650 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 391165006651 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 391165006652 ATP-grasp domain; Region: ATP-grasp_4; cl03087 391165006653 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 391165006654 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 391165006655 ATP-grasp domain; Region: ATP-grasp_4; cl03087 391165006656 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 391165006657 IMP binding site; other site 391165006658 dimer interface [polypeptide binding]; other site 391165006659 partial ornithine binding site; other site 391165006660 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 391165006661 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 391165006662 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 391165006663 threonine dehydratase; Provisional; Region: PRK07334 391165006664 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 391165006665 tetramer interface [polypeptide binding]; other site 391165006666 pyridoxal 5'-phosphate binding site [chemical binding]; other site 391165006667 catalytic residue [active] 391165006668 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 391165006669 dihydroorotase; Validated; Region: PRK09060 391165006670 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 391165006671 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 391165006672 active site 391165006673 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 391165006674 metabolite-proton symporter; Region: 2A0106; TIGR00883 391165006675 putative substrate translocation pore; other site 391165006676 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 391165006677 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 391165006678 Trp docking motif [polypeptide binding]; other site 391165006679 active site 391165006680 PQQ-like domain; Region: PQQ_2; pfam13360 391165006681 GTP-binding protein Der; Reviewed; Region: PRK00093 391165006682 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 391165006683 G1 box; other site 391165006684 GTP/Mg2+ binding site [chemical binding]; other site 391165006685 Switch I region; other site 391165006686 G2 box; other site 391165006687 Switch II region; other site 391165006688 G3 box; other site 391165006689 G4 box; other site 391165006690 G5 box; other site 391165006691 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 391165006692 G1 box; other site 391165006693 GTP/Mg2+ binding site [chemical binding]; other site 391165006694 Switch I region; other site 391165006695 G2 box; other site 391165006696 G3 box; other site 391165006697 Switch II region; other site 391165006698 G4 box; other site 391165006699 G5 box; other site 391165006700 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 391165006701 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 391165006702 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 391165006703 ATP-grasp domain; Region: ATP-grasp_4; cl03087 391165006704 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 391165006705 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 391165006706 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 391165006707 generic binding surface II; other site 391165006708 generic binding surface I; other site 391165006709 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 391165006710 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 391165006711 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 391165006712 NMT1-like family; Region: NMT1_2; cl15260 391165006713 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 391165006714 NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars; Region: ABC_NrtD_SsuB_transporters; cd03293 391165006715 Walker A/P-loop; other site 391165006716 ATP binding site [chemical binding]; other site 391165006717 Q-loop/lid; other site 391165006718 ABC transporter signature motif; other site 391165006719 Walker B; other site 391165006720 D-loop; other site 391165006721 H-loop/switch region; other site 391165006722 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 391165006723 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 391165006724 active site 391165006725 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 391165006726 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 391165006727 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 391165006728 active site 391165006729 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 391165006730 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 391165006731 FeS/SAM binding site; other site 391165006732 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 391165006733 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165006734 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 391165006735 Membrane fusogenic activity; Region: BMFP; cl01115 391165006736 Uncharacterized conserved protein [Function unknown]; Region: COG1565 391165006737 Putative S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_28; pfam02636 391165006738 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 391165006739 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 391165006740 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 391165006741 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 391165006742 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 391165006743 active site 391165006744 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 391165006745 catalytic core [active] 391165006746 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 391165006747 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 391165006748 5S rRNA interface [nucleotide binding]; other site 391165006749 CTC domain interface [polypeptide binding]; other site 391165006750 L16 interface [polypeptide binding]; other site 391165006751 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 391165006752 putative active site [active] 391165006753 catalytic residue [active] 391165006754 GTP-binding protein YchF; Reviewed; Region: PRK09601 391165006755 YchF GTPase; Region: YchF; cd01900 391165006756 G1 box; other site 391165006757 GTP/Mg2+ binding site [chemical binding]; other site 391165006758 Switch I region; other site 391165006759 G2 box; other site 391165006760 Switch II region; other site 391165006761 G3 box; other site 391165006762 G4 box; other site 391165006763 G5 box; other site 391165006764 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 391165006765 Predicted secreted protein [Function unknown]; Region: COG5501 391165006766 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 391165006767 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 391165006768 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 391165006769 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 391165006770 YceI-like domain; Region: YceI; cl01001 391165006771 Protein of unknown function (DUF1489); Region: DUF1489; cl11570 391165006772 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; cl16911 391165006773 Cysteine-rich domain; Region: CCG; pfam02754 391165006774 Cysteine-rich domain; Region: CCG; pfam02754 391165006775 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 391165006776 active site 391165006777 catalytic site [active] 391165006778 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 391165006779 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 391165006780 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 391165006781 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 391165006782 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 391165006783 Smr domain; Region: Smr; cl02619 391165006784 PAS fold; Region: PAS_4; pfam08448 391165006785 GAF domain; Region: GAF_2; pfam13185 391165006786 GAF domain; Region: GAF; cl15785 391165006787 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 391165006788 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 391165006789 dimer interface [polypeptide binding]; other site 391165006790 phosphorylation site [posttranslational modification] 391165006791 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 391165006792 ATP binding site [chemical binding]; other site 391165006793 Mg2+ binding site [ion binding]; other site 391165006794 G-X-G motif; other site 391165006795 Response regulator receiver domain; Region: Response_reg; pfam00072 391165006796 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 391165006797 active site 391165006798 phosphorylation site [posttranslational modification] 391165006799 intermolecular recognition site; other site 391165006800 dimerization interface [polypeptide binding]; other site 391165006801 Response regulator receiver domain; Region: Response_reg; pfam00072 391165006802 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 391165006803 active site 391165006804 phosphorylation site [posttranslational modification] 391165006805 intermolecular recognition site; other site 391165006806 dimerization interface [polypeptide binding]; other site 391165006807 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 391165006808 MltA specific insert domain; Region: MltA; cl08398 391165006809 3D domain; Region: 3D; cl01439 391165006810 Tim44-like domain; Region: Tim44; cl09208 391165006811 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 391165006812 catalytic core [active] 391165006813 Preprotein translocase subunit SecB. SecB is a cytoplasmic component of the multisubunit membrane-bound enzyme termed Sec protein translocase, which is the main constituent of the General Secretory (type II) Pathway involved in translocation of nascent...; Region: Translocase_SecB; cl00251 391165006814 SecA binding site; other site 391165006815 Preprotein binding site; other site 391165006816 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 391165006817 Helix-turn-helix domains; Region: HTH; cl00088 391165006818 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_2; cd08464 391165006819 putative substrate binding pocket [chemical binding]; other site 391165006820 putative dimerization interface [polypeptide binding]; other site 391165006821 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 391165006822 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 391165006823 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 391165006824 Walker A/P-loop; other site 391165006825 ATP binding site [chemical binding]; other site 391165006826 Q-loop/lid; other site 391165006827 ABC transporter signature motif; other site 391165006828 Walker B; other site 391165006829 D-loop; other site 391165006830 H-loop/switch region; other site 391165006831 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 391165006832 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 391165006833 ligand binding site; other site 391165006834 oligomer interface; other site 391165006835 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 391165006836 dimer interface [polypeptide binding]; other site 391165006837 N-terminal domain interface [polypeptide binding]; other site 391165006838 sulfate 1 binding site; other site 391165006839 glycogen synthase; Provisional; Region: glgA; PRK00654 391165006840 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 391165006841 ADP-binding pocket [chemical binding]; other site 391165006842 homodimer interface [polypeptide binding]; other site 391165006843 K+ potassium transporter; Region: K_trans; cl15781 391165006844 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 391165006845 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 391165006846 catalytic residue [active] 391165006847 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 391165006848 thiamine phosphate binding site [chemical binding]; other site 391165006849 active site 391165006850 pyrophosphate binding site [ion binding]; other site 391165006851 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 391165006852 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 391165006853 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 391165006854 putative NAD(P) binding site [chemical binding]; other site 391165006855 putative substrate binding site [chemical binding]; other site 391165006856 catalytic Zn binding site [ion binding]; other site 391165006857 structural Zn binding site [ion binding]; other site 391165006858 dimer interface [polypeptide binding]; other site 391165006859 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 391165006860 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165006861 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 391165006862 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 391165006863 pyruvate dehydrogenase; Provisional; Region: PRK09124 391165006864 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 391165006865 PYR/PP interface [polypeptide binding]; other site 391165006866 tetramer interface [polypeptide binding]; other site 391165006867 dimer interface [polypeptide binding]; other site 391165006868 TPP binding site [chemical binding]; other site 391165006869 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 391165006870 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 391165006871 TPP-binding site [chemical binding]; other site 391165006872 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 391165006873 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 391165006874 FMN binding site [chemical binding]; other site 391165006875 substrate binding site [chemical binding]; other site 391165006876 putative catalytic residue [active] 391165006877 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 391165006878 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 391165006879 RNase E interface [polypeptide binding]; other site 391165006880 trimer interface [polypeptide binding]; other site 391165006881 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 391165006882 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 391165006883 RNase E interface [polypeptide binding]; other site 391165006884 trimer interface [polypeptide binding]; other site 391165006885 active site 391165006886 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 391165006887 putative nucleic acid binding region [nucleotide binding]; other site 391165006888 G-X-X-G motif; other site 391165006889 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 391165006890 RNA binding site [nucleotide binding]; other site 391165006891 domain interface; other site 391165006892 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 391165006893 16S/18S rRNA binding site [nucleotide binding]; other site 391165006894 S13e-L30e interaction site [polypeptide binding]; other site 391165006895 25S rRNA binding site [nucleotide binding]; other site 391165006896 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 391165006897 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 391165006898 RNA binding site [nucleotide binding]; other site 391165006899 active site 391165006900 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 391165006901 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 391165006902 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 391165006903 NADP-binding site; other site 391165006904 homotetramer interface [polypeptide binding]; other site 391165006905 substrate binding site [chemical binding]; other site 391165006906 homodimer interface [polypeptide binding]; other site 391165006907 active site 391165006908 Transglycosylase; Region: Transgly; cl07896 391165006909 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 391165006910 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 391165006911 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 391165006912 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 391165006913 MG2 domain; Region: A2M_N; pfam01835 391165006914 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 391165006915 Alpha-2-macroglobulin family; Region: A2M; pfam00207 391165006916 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 391165006917 surface patch; other site 391165006918 thioester region; other site 391165006919 specificity defining residues; other site 391165006920 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 391165006921 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 391165006922 putative acyl-acceptor binding pocket; other site 391165006923 AMP-binding enzyme; Region: AMP-binding; cl15778 391165006924 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 391165006925 Nitroreductase-like family 5. 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_5; cd02148 391165006926 putative FMN binding site [chemical binding]; other site 391165006927 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 391165006928 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 391165006929 dimer interface [polypeptide binding]; other site 391165006930 phosphorylation site [posttranslational modification] 391165006931 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 391165006932 ATP binding site [chemical binding]; other site 391165006933 Mg2+ binding site [ion binding]; other site 391165006934 G-X-G motif; other site 391165006935 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 391165006936 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 391165006937 putative ligand binding site [chemical binding]; other site 391165006938 Predicted methyltransferases [General function prediction only]; Region: COG0313 391165006939 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 391165006940 active site 391165006941 dimer interface [polypeptide binding]; other site 391165006942 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 391165006943 active site 391165006944 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 391165006945 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 391165006946 GTP binding site; other site 391165006947 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 391165006948 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 391165006949 substrate binding pocket [chemical binding]; other site 391165006950 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cl12031 391165006951 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 391165006952 active site 391165006953 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 391165006954 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 391165006955 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 391165006956 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 391165006957 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 391165006958 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 391165006959 IucA / IucC family; Region: IucA_IucC; pfam04183 391165006960 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 391165006961 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 391165006962 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 391165006963 IucA / IucC family; Region: IucA_IucC; pfam04183 391165006964 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 391165006965 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 391165006966 Major Facilitator Superfamily; Region: MFS_1; pfam07690 391165006967 putative substrate translocation pore; other site 391165006968 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 391165006969 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 391165006970 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 391165006971 hydrogenase 4 subunit B; Validated; Region: PRK06521 391165006972 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 391165006973 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 391165006974 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 391165006975 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 391165006976 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 391165006977 Probable Catalytic site; other site 391165006978 metal-binding site 391165006979 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 391165006980 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 391165006981 Probable Catalytic site; other site 391165006982 metal-binding site 391165006983 Ribosome-binding factor A; Region: RBFA; cl00542 391165006984 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 391165006985 translation initiation factor IF-2; Region: IF-2; TIGR00487 391165006986 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 391165006987 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 391165006988 G1 box; other site 391165006989 putative GEF interaction site [polypeptide binding]; other site 391165006990 GTP/Mg2+ binding site [chemical binding]; other site 391165006991 Switch I region; other site 391165006992 G2 box; other site 391165006993 G3 box; other site 391165006994 Switch II region; other site 391165006995 G4 box; other site 391165006996 G5 box; other site 391165006997 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 391165006998 Translation-initiation factor 2; Region: IF-2; pfam11987 391165006999 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 391165007000 hypothetical protein; Provisional; Region: PRK09190 391165007001 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 391165007002 putative RNA binding cleft [nucleotide binding]; other site 391165007003 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 391165007004 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 391165007005 NusA N-terminal domain; Region: NusA_N; pfam08529 391165007006 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 391165007007 RNA binding site [nucleotide binding]; other site 391165007008 homodimer interface [polypeptide binding]; other site 391165007009 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 391165007010 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 391165007011 G-X-X-G motif; other site 391165007012 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 391165007013 ribosome maturation protein RimP; Reviewed; Region: PRK00092 391165007014 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 391165007015 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 391165007016 Sm1 motif; other site 391165007017 D1 - D2 interaction site; other site 391165007018 D3 - B interaction site; other site 391165007019 Hfq - Hfq interaction site; other site 391165007020 RNA binding pocket [nucleotide binding]; other site 391165007021 Sm2 motif; other site 391165007022 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 391165007023 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 391165007024 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; cl16911 391165007025 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 391165007026 S-adenosylmethionine synthetase; Validated; Region: PRK05250 391165007027 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 391165007028 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 391165007029 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 391165007030 putative active site [active] 391165007031 YdjC motif; other site 391165007032 Mg binding site [ion binding]; other site 391165007033 putative homodimer interface [polypeptide binding]; other site 391165007034 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 391165007035 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 391165007036 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 391165007037 FeS/SAM binding site; other site 391165007038 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 391165007039 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 391165007040 ligand binding site; other site 391165007041 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 391165007042 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 391165007043 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 391165007044 TPP-binding site; other site 391165007045 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 391165007046 PYR/PP interface [polypeptide binding]; other site 391165007047 dimer interface [polypeptide binding]; other site 391165007048 TPP binding site [chemical binding]; other site 391165007049 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 391165007050 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 391165007051 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 391165007052 FeS/SAM binding site; other site 391165007053 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 391165007054 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 391165007055 dihydrodipicolinate reductase; Provisional; Region: PRK00048 391165007056 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165007057 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 391165007058 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 391165007059 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 391165007060 Helix-turn-helix domains; Region: HTH; cl00088 391165007061 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 391165007062 homodimer interface [polypeptide binding]; other site 391165007063 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 391165007064 active site pocket [active] 391165007065 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 391165007066 active site 391165007067 HIGH motif; other site 391165007068 dimer interface [polypeptide binding]; other site 391165007069 KMSKS motif; other site 391165007070 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 391165007071 Ligand binding site; other site 391165007072 Putative Catalytic site; other site 391165007073 DXD motif; other site 391165007074 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 391165007075 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165007076 TOBE domain; Region: TOBE_2; cl01440 391165007077 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 391165007078 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 391165007079 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 391165007080 active site 391165007081 non-prolyl cis peptide bond; other site 391165007082 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 391165007083 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 391165007084 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 391165007085 active site 391165007086 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 391165007087 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 391165007088 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; cl03189 391165007089 domain interfaces; other site 391165007090 active site 391165007091 UGMP family protein; Validated; Region: PRK09604 391165007092 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 391165007093 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 391165007094 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 391165007095 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 391165007096 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 391165007097 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 391165007098 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 391165007099 minor groove reading motif; other site 391165007100 helix-hairpin-helix signature motif; other site 391165007101 substrate binding pocket [chemical binding]; other site 391165007102 active site 391165007103 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 391165007104 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 391165007105 Phosphate transporter family; Region: PHO4; cl00396 391165007106 Phosphate transporter family; Region: PHO4; cl00396 391165007107 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 391165007108 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 391165007109 Ferrochelatase; Region: Ferrochelatase; pfam00762 391165007110 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 391165007111 C-terminal domain interface [polypeptide binding]; other site 391165007112 active site 391165007113 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 391165007114 active site 391165007115 N-terminal domain interface [polypeptide binding]; other site 391165007116 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 391165007117 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 391165007118 ATP binding site [chemical binding]; other site 391165007119 Mg++ binding site [ion binding]; other site 391165007120 motif III; other site 391165007121 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 391165007122 nucleotide binding region [chemical binding]; other site 391165007123 ATP-binding site [chemical binding]; other site