-- dump date 20120504_160904 -- class Genbank::misc_feature -- table misc_feature_note -- id note 246200000001 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 246200000002 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 246200000003 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 246200000004 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 246200000005 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 246200000006 P-loop; other site 246200000007 Magnesium ion binding site [ion binding]; other site 246200000008 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 246200000009 Magnesium ion binding site [ion binding]; other site 246200000010 ParB-like partition proteins; Region: parB_part; TIGR00180 246200000011 ParB-like nuclease domain; Region: ParBc; cl02129 246200000012 KorB domain; Region: KorB; pfam08535 246200000013 Protein of unknown function (DUF454); Region: DUF454; cl01063 246200000014 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 246200000015 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 246200000016 FeS/SAM binding site; other site 246200000017 HemN C-terminal region; Region: HemN_C; pfam06969 246200000018 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 246200000019 active site 246200000020 dimerization interface [polypeptide binding]; other site 246200000021 ribonuclease PH; Reviewed; Region: rph; PRK00173 246200000022 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 246200000023 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 246200000024 Helix-turn-helix domains; Region: HTH; cl00088 246200000025 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 246200000026 HrcA protein C terminal domain; Region: HrcA; pfam01628 246200000027 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 246200000028 dimer interface [polypeptide binding]; other site 246200000029 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 246200000030 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 246200000031 MutS domain I; Region: MutS_I; pfam01624 246200000032 MutS domain II; Region: MutS_II; pfam05188 246200000033 MutS family domain IV; Region: MutS_IV; pfam05190 246200000034 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 246200000035 Walker A/P-loop; other site 246200000036 ATP binding site [chemical binding]; other site 246200000037 Q-loop/lid; other site 246200000038 ABC transporter signature motif; other site 246200000039 Walker B; other site 246200000040 D-loop; other site 246200000041 H-loop/switch region; other site 246200000042 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 246200000043 Malic enzyme, N-terminal domain; Region: malic; pfam00390 246200000044 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 246200000045 putative NAD(P) binding site [chemical binding]; other site 246200000046 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 246200000047 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 246200000048 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 246200000049 substrate binding site [chemical binding]; other site 246200000050 dimer interface [polypeptide binding]; other site 246200000051 ATP binding site [chemical binding]; other site 246200000052 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 246200000053 SCP-2 sterol transfer family; Region: SCP2; cl01225 246200000054 Protein of unknown function (DUF1810); Region: DUF1810; cl02370 246200000055 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 246200000056 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 246200000057 ANP binding site [chemical binding]; other site 246200000058 Substrate Binding Site II [chemical binding]; other site 246200000059 Substrate Binding Site I [chemical binding]; other site 246200000060 threonine dehydratase; Validated; Region: PRK08639 246200000061 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 246200000062 tetramer interface [polypeptide binding]; other site 246200000063 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200000064 catalytic residue [active] 246200000065 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 246200000066 putative Ile/Val binding site [chemical binding]; other site 246200000067 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 246200000068 Response regulator receiver domain; Region: Response_reg; pfam00072 246200000069 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 246200000070 active site 246200000071 phosphorylation site [posttranslational modification] 246200000072 intermolecular recognition site; other site 246200000073 dimerization interface [polypeptide binding]; other site 246200000074 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 246200000075 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 246200000076 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 246200000077 nudix motif; other site 246200000078 Disulfide bond chaperones of the HSP33 family [Posttranslational modification, protein turnover, chaperones]; Region: COG1281 246200000079 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 246200000080 dimerization interface [polypeptide binding]; other site 246200000081 domain crossover interface; other site 246200000082 redox-dependent activation switch; other site 246200000083 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 246200000084 putative active site [active] 246200000085 putative CoA binding site [chemical binding]; other site 246200000086 nudix motif; other site 246200000087 metal binding site [ion binding]; metal-binding site 246200000088 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 246200000089 active site 246200000090 NTP binding site [chemical binding]; other site 246200000091 metal binding triad [ion binding]; metal-binding site 246200000092 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 246200000093 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 246200000094 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 246200000095 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200000096 Walker A/P-loop; other site 246200000097 ATP binding site [chemical binding]; other site 246200000098 Q-loop/lid; other site 246200000099 ABC transporter signature motif; other site 246200000100 Walker B; other site 246200000101 D-loop; other site 246200000102 H-loop/switch region; other site 246200000103 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 246200000104 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200000105 Walker A/P-loop; other site 246200000106 ATP binding site [chemical binding]; other site 246200000107 Q-loop/lid; other site 246200000108 ABC transporter signature motif; other site 246200000109 Walker B; other site 246200000110 D-loop; other site 246200000111 H-loop/switch region; other site 246200000112 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 246200000113 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 246200000114 S-adenosylmethionine binding site [chemical binding]; other site 246200000115 Ion transport protein; Region: Ion_trans; pfam00520 246200000116 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 246200000117 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200000118 Helix-turn-helix domains; Region: HTH; cl00088 246200000119 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 246200000120 dimerization interface [polypeptide binding]; other site 246200000121 substrate binding pocket [chemical binding]; other site 246200000122 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 246200000123 Core-2/I-Branching enzyme; Region: Branch; pfam02485 246200000124 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 246200000125 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 246200000126 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 246200000127 Ligand binding site; other site 246200000128 oligomer interface; other site 246200000129 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 246200000130 active site 246200000131 ABC-2 type transporter; Region: ABC2_membrane; cl11417 246200000132 Bacterial SH3 domain; Region: SH3_3; cl02551 246200000133 Predicted membrane protein [Function unknown]; Region: COG3650 246200000134 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 246200000135 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 246200000136 chaperone protein DnaJ; Provisional; Region: PRK10767 246200000137 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 246200000138 HSP70 interaction site [polypeptide binding]; other site 246200000139 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 246200000140 substrate binding site [polypeptide binding]; other site 246200000141 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 246200000142 Zn binding sites [ion binding]; other site 246200000143 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 246200000144 dimer interface [polypeptide binding]; other site 246200000145 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 246200000146 dimer interface [polypeptide binding]; other site 246200000147 substrate binding site [chemical binding]; other site 246200000148 ATP binding site [chemical binding]; other site 246200000149 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200000150 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200000151 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200000152 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 246200000153 thiS-thiF/thiG interaction site; other site 246200000154 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 246200000155 ThiS interaction site; other site 246200000156 putative active site [active] 246200000157 tetramer interface [polypeptide binding]; other site 246200000158 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 246200000159 active site 246200000160 thiamine phosphate binding site [chemical binding]; other site 246200000161 pyrophosphate binding site [ion binding]; other site 246200000162 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 246200000163 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 246200000164 ATP binding site [chemical binding]; other site 246200000165 substrate interface [chemical binding]; other site 246200000166 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 246200000167 active site residue [active] 246200000168 NMT1/THI5 like; Region: NMT1; pfam09084 246200000169 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 246200000170 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 246200000171 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 246200000172 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200000173 Walker A/P-loop; other site 246200000174 ATP binding site [chemical binding]; other site 246200000175 Q-loop/lid; other site 246200000176 ABC transporter signature motif; other site 246200000177 Walker B; other site 246200000178 D-loop; other site 246200000179 H-loop/switch region; other site 246200000180 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 246200000181 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 246200000182 dimer interface [polypeptide binding]; other site 246200000183 conserved gate region; other site 246200000184 putative PBP binding loops; other site 246200000185 ABC-ATPase subunit interface; other site 246200000186 hypothetical protein; Reviewed; Region: PRK00024 246200000187 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 246200000188 MPN+ (JAMM) motif; other site 246200000189 Zinc-binding site [ion binding]; other site 246200000190 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 246200000191 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 246200000192 ligand binding site [chemical binding]; other site 246200000193 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 246200000194 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 246200000195 hypothetical protein; Provisional; Region: PRK00183 246200000196 SEC-C motif; Region: SEC-C; pfam02810 246200000197 PPIC-type PPIASE domain; Region: Rotamase; cl08278 246200000198 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 246200000199 heterotetramer interface [polypeptide binding]; other site 246200000200 active site pocket [active] 246200000201 cleavage site 246200000202 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 246200000203 active site 246200000204 8-oxo-dGMP binding site [chemical binding]; other site 246200000205 nudix motif; other site 246200000206 metal binding site [ion binding]; metal-binding site 246200000207 translation initiation factor IF-2; Region: IF-2; TIGR00487 246200000208 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 246200000209 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases; Region: IF2_eIF5B; cd01887 246200000210 G1 box; other site 246200000211 putative GEF interaction site [polypeptide binding]; other site 246200000212 GTP/Mg2+ binding site [chemical binding]; other site 246200000213 Switch I region; other site 246200000214 G2 box; other site 246200000215 G3 box; other site 246200000216 Switch II region; other site 246200000217 G4 box; other site 246200000218 G5 box; other site 246200000219 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 246200000220 Translation-initiation factor 2; Region: IF-2; pfam11987 246200000221 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 246200000222 hypothetical protein; Provisional; Region: PRK09190 246200000223 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 246200000224 putative RNA binding cleft [nucleotide binding]; other site 246200000225 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 246200000226 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 246200000227 NusA N-terminal domain; Region: NusA_N; pfam08529 246200000228 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 246200000229 RNA binding site [nucleotide binding]; other site 246200000230 homodimer interface [polypeptide binding]; other site 246200000231 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 246200000232 G-X-X-G motif; other site 246200000233 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 246200000234 G-X-X-G motif; other site 246200000235 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 246200000236 ribosome maturation protein RimP; Reviewed; Region: PRK00092 246200000237 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 246200000238 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 246200000239 Sm1 motif; other site 246200000240 D3 - B interaction site; other site 246200000241 D1 - D2 interaction site; other site 246200000242 Hfq - Hfq interaction site; other site 246200000243 RNA binding pocket [nucleotide binding]; other site 246200000244 Sm2 motif; other site 246200000245 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; cl01709 246200000246 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 246200000247 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 246200000248 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 246200000249 S-adenosylmethionine binding site [chemical binding]; other site 246200000250 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 246200000251 Transcriptional regulators [Transcription]; Region: MarR; COG1846 246200000252 Helix-turn-helix domains; Region: HTH; cl00088 246200000253 Predicted amidohydrolase [General function prediction only]; Region: COG0388 246200000254 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 246200000255 putative active site [active] 246200000256 catalytic triad [active] 246200000257 dimer interface [polypeptide binding]; other site 246200000258 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 246200000259 GSH binding site [chemical binding]; other site 246200000260 catalytic residues [active] 246200000261 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 246200000262 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 246200000263 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; cl12011 246200000264 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 246200000265 ferrochelatase; Reviewed; Region: hemH; PRK00035 246200000266 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 246200000267 C-terminal domain interface [polypeptide binding]; other site 246200000268 active site 246200000269 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 246200000270 active site 246200000271 N-terminal domain interface [polypeptide binding]; other site 246200000272 L,D-transpeptidase; Provisional; Region: PRK10190 246200000273 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 246200000274 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 246200000275 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 246200000276 active site 246200000277 phosphorylation site [posttranslational modification] 246200000278 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 246200000279 30S subunit binding site; other site 246200000280 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 246200000281 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 246200000282 Walker A/P-loop; other site 246200000283 ATP binding site [chemical binding]; other site 246200000284 Q-loop/lid; other site 246200000285 ABC transporter signature motif; other site 246200000286 Walker B; other site 246200000287 D-loop; other site 246200000288 H-loop/switch region; other site 246200000289 OstA-like protein; Region: OstA; cl00844 246200000290 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 246200000291 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 246200000292 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 246200000293 putative active site [active] 246200000294 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 246200000295 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 246200000296 putative active site [active] 246200000297 catalytic site [active] 246200000298 putative substrate binding site [chemical binding]; other site 246200000299 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200000300 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 246200000301 NAD(P) binding site [chemical binding]; other site 246200000302 catalytic residues [active] 246200000303 Imelysin; Region: Peptidase_M75; cl09159 246200000304 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 246200000305 Imelysin; Region: Peptidase_M75; cl09159 246200000306 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 246200000307 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 246200000308 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 246200000309 active site residue [active] 246200000310 putative chaperone; Provisional; Region: PRK11678 246200000311 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 246200000312 catalytic triad [active] 246200000313 metal binding site [ion binding]; metal-binding site 246200000314 conserved cis-peptide bond; other site 246200000315 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 246200000316 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 246200000317 putative active site [active] 246200000318 heme pocket [chemical binding]; other site 246200000319 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 246200000320 dimer interface [polypeptide binding]; other site 246200000321 phosphorylation site [posttranslational modification] 246200000322 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 246200000323 ATP binding site [chemical binding]; other site 246200000324 Mg2+ binding site [ion binding]; other site 246200000325 G-X-G motif; other site 246200000326 Response regulator receiver domain; Region: Response_reg; pfam00072 246200000327 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 246200000328 active site 246200000329 phosphorylation site [posttranslational modification] 246200000330 intermolecular recognition site; other site 246200000331 dimerization interface [polypeptide binding]; other site 246200000332 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 246200000333 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 246200000334 active site 246200000335 EamA-like transporter family; Region: EamA; cl01037 246200000336 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200000337 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 246200000338 NAD(P) binding site [chemical binding]; other site 246200000339 catalytic residues [active] 246200000340 catalytic residues [active] 246200000341 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 246200000342 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 246200000343 Walker A/P-loop; other site 246200000344 ATP binding site [chemical binding]; other site 246200000345 Q-loop/lid; other site 246200000346 ABC transporter signature motif; other site 246200000347 Walker B; other site 246200000348 D-loop; other site 246200000349 H-loop/switch region; other site 246200000350 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 246200000351 Walker A/P-loop; other site 246200000352 ATP binding site [chemical binding]; other site 246200000353 Q-loop/lid; other site 246200000354 ABC transporter signature motif; other site 246200000355 Walker B; other site 246200000356 D-loop; other site 246200000357 H-loop/switch region; other site 246200000358 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200000359 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 246200000360 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 246200000361 dimer interface [polypeptide binding]; other site 246200000362 conserved gate region; other site 246200000363 putative PBP binding loops; other site 246200000364 ABC-ATPase subunit interface; other site 246200000365 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200000366 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 246200000367 dimer interface [polypeptide binding]; other site 246200000368 conserved gate region; other site 246200000369 putative PBP binding loops; other site 246200000370 ABC-ATPase subunit interface; other site 246200000371 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_6; cd08494 246200000372 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 246200000373 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 246200000374 active site 246200000375 oligomerization interface [polypeptide binding]; other site 246200000376 metal binding site [ion binding]; metal-binding site 246200000377 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 246200000378 Pantoate-beta-alanine ligase; Region: PanC; cd00560 246200000379 active site 246200000380 ATP-binding site [chemical binding]; other site 246200000381 pantoate-binding site; other site 246200000382 HXXH motif; other site 246200000383 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 246200000384 glycerol kinase; Provisional; Region: glpK; PRK00047 246200000385 N- and C-terminal domain interface [polypeptide binding]; other site 246200000386 active site 246200000387 MgATP binding site [chemical binding]; other site 246200000388 catalytic site [active] 246200000389 metal binding site [ion binding]; metal-binding site 246200000390 glycerol binding site [chemical binding]; other site 246200000391 homotetramer interface [polypeptide binding]; other site 246200000392 homodimer interface [polypeptide binding]; other site 246200000393 FBP binding site [chemical binding]; other site 246200000394 protein IIAGlc interface [polypeptide binding]; other site 246200000395 hypothetical protein; Provisional; Region: PRK07538 246200000396 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200000397 Protein of unknown function (DUF328); Region: DUF328; cl01143 246200000398 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 246200000399 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 246200000400 ATP binding site [chemical binding]; other site 246200000401 putative Mg++ binding site [ion binding]; other site 246200000402 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 246200000403 nucleotide binding region [chemical binding]; other site 246200000404 ATP-binding site [chemical binding]; other site 246200000405 RQC domain; Region: RQC; cl09632 246200000406 HRDC domain; Region: HRDC; cl02578 246200000407 HRDC domain; Region: HRDC; cl02578 246200000408 putative transposase OrfB; Reviewed; Region: PHA02517 246200000409 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 246200000410 ABC-2 type transporter; Region: ABC2_membrane; cl11417 246200000411 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 246200000412 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200000413 Walker A/P-loop; other site 246200000414 ATP binding site [chemical binding]; other site 246200000415 Q-loop/lid; other site 246200000416 ABC transporter signature motif; other site 246200000417 Walker B; other site 246200000418 D-loop; other site 246200000419 H-loop/switch region; other site 246200000420 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 246200000421 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200000422 Walker A/P-loop; other site 246200000423 ATP binding site [chemical binding]; other site 246200000424 Q-loop/lid; other site 246200000425 ABC transporter signature motif; other site 246200000426 Walker B; other site 246200000427 D-loop; other site 246200000428 H-loop/switch region; other site 246200000429 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 246200000430 ABC-2 type transporter; Region: ABC2_membrane; cl11417 246200000431 multidrug resistance protein MdtN; Provisional; Region: PRK10476 246200000432 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 246200000433 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 246200000434 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 246200000435 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 246200000436 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 246200000437 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 246200000438 NAD binding site [chemical binding]; other site 246200000439 homotetramer interface [polypeptide binding]; other site 246200000440 homodimer interface [polypeptide binding]; other site 246200000441 substrate binding site [chemical binding]; other site 246200000442 active site 246200000443 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 246200000444 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 246200000445 dimer interaction site [polypeptide binding]; other site 246200000446 substrate-binding tunnel; other site 246200000447 active site 246200000448 catalytic site [active] 246200000449 substrate binding site [chemical binding]; other site 246200000450 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 246200000451 Acetokinase family; Region: Acetate_kinase; cl01029 246200000452 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200000453 Helix-turn-helix domains; Region: HTH; cl00088 246200000454 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 246200000455 YGGT family; Region: YGGT; cl00508 246200000456 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 246200000457 Penicillin-insensitive murein endopeptidase; Region: Peptidase_M74; cl01538 246200000458 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 246200000459 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 246200000460 RF-1 domain; Region: RF-1; cl02875 246200000461 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 246200000462 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 246200000463 putative NAD(P) binding site [chemical binding]; other site 246200000464 active site 246200000465 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 246200000466 putative active site pocket [active] 246200000467 cleavage site 246200000468 Cytochrome c; Region: Cytochrom_C; cl11414 246200000469 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 246200000470 active site 246200000471 metal binding site [ion binding]; metal-binding site 246200000472 nudix motif; other site 246200000473 PAS fold; Region: PAS_7; pfam12860 246200000474 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 246200000475 dimer interface [polypeptide binding]; other site 246200000476 phosphorylation site [posttranslational modification] 246200000477 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 246200000478 ATP binding site [chemical binding]; other site 246200000479 Mg2+ binding site [ion binding]; other site 246200000480 G-X-G motif; other site 246200000481 Response regulator receiver domain; Region: Response_reg; pfam00072 246200000482 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 246200000483 active site 246200000484 phosphorylation site [posttranslational modification] 246200000485 intermolecular recognition site; other site 246200000486 dimerization interface [polypeptide binding]; other site 246200000487 Response regulator receiver domain; Region: Response_reg; pfam00072 246200000488 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 246200000489 active site 246200000490 phosphorylation site [posttranslational modification] 246200000491 intermolecular recognition site; other site 246200000492 dimerization interface [polypeptide binding]; other site 246200000493 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 246200000494 MG2 domain; Region: A2M_N; pfam01835 246200000495 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 246200000496 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 246200000497 surface patch; other site 246200000498 thioester region; other site 246200000499 specificity defining residues; other site 246200000500 Protein of unknown function (DUF1089); Region: DUF1089; cl01425 246200000501 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 246200000502 Transglycosylase; Region: Transgly; cl07896 246200000503 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 246200000504 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 246200000505 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 246200000506 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 246200000507 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 246200000508 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 246200000509 MoxR-like ATPases [General function prediction only]; Region: COG0714 246200000510 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200000511 Protein of unknown function (DUF1285); Region: DUF1285; cl01571 246200000512 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 246200000513 non-specific DNA binding site [nucleotide binding]; other site 246200000514 salt bridge; other site 246200000515 sequence-specific DNA binding site [nucleotide binding]; other site 246200000516 Cupin domain; Region: Cupin_2; cl09118 246200000517 beta-ketothiolase; Provisional; Region: PRK09051 246200000518 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 246200000519 dimer interface [polypeptide binding]; other site 246200000520 active site 246200000521 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 246200000522 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 246200000523 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 246200000524 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 246200000525 S-adenosylmethionine binding site [chemical binding]; other site 246200000526 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 246200000527 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 246200000528 DNA binding site [nucleotide binding] 246200000529 catalytic residue [active] 246200000530 H2TH interface [polypeptide binding]; other site 246200000531 putative catalytic residues [active] 246200000532 turnover-facilitating residue; other site 246200000533 intercalation triad [nucleotide binding]; other site 246200000534 8OG recognition residue [nucleotide binding]; other site 246200000535 putative reading head residues; other site 246200000536 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 246200000537 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 246200000538 enoyl-CoA hydratase; Provisional; Region: PRK05862 246200000539 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 246200000540 substrate binding site [chemical binding]; other site 246200000541 oxyanion hole (OAH) forming residues; other site 246200000542 trimer interface [polypeptide binding]; other site 246200000543 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 246200000544 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 246200000545 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 246200000546 Walker A motif; other site 246200000547 ATP binding site [chemical binding]; other site 246200000548 Walker B motif; other site 246200000549 arginine finger; other site 246200000550 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 246200000551 DnaA box-binding interface [nucleotide binding]; other site 246200000552 DNA polymerase III subunit beta; Validated; Region: PRK05643 246200000553 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 246200000554 putative DNA binding surface [nucleotide binding]; other site 246200000555 dimer interface [polypeptide binding]; other site 246200000556 beta-clamp/clamp loader binding surface; other site 246200000557 beta-clamp/translesion DNA polymerase binding surface; other site 246200000558 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 246200000559 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200000560 Walker A/P-loop; other site 246200000561 ATP binding site [chemical binding]; other site 246200000562 Q-loop/lid; other site 246200000563 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200000564 ABC transporter signature motif; other site 246200000565 Walker B; other site 246200000566 D-loop; other site 246200000567 H-loop/switch region; other site 246200000568 LysE type translocator; Region: LysE; cl00565 246200000569 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200000570 Helix-turn-helix domains; Region: HTH; cl00088 246200000571 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 246200000572 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 246200000573 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 246200000574 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 246200000575 anchoring element; other site 246200000576 dimer interface [polypeptide binding]; other site 246200000577 ATP binding site [chemical binding]; other site 246200000578 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 246200000579 active site 246200000580 putative metal-binding site [ion binding]; other site 246200000581 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 246200000582 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 246200000583 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 246200000584 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 246200000585 Walker A motif; other site 246200000586 ATP binding site [chemical binding]; other site 246200000587 Walker B motif; other site 246200000588 arginine finger; other site 246200000589 TROVE domain; Region: TROVE; pfam05731 246200000590 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 246200000591 metal ion-dependent adhesion site (MIDAS); other site 246200000592 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; cl14780 246200000593 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200000594 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 246200000595 active site 246200000596 phosphorylation site [posttranslational modification] 246200000597 intermolecular recognition site; other site 246200000598 dimerization interface [polypeptide binding]; other site 246200000599 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 246200000600 DNA binding residues [nucleotide binding] 246200000601 dimerization interface [polypeptide binding]; other site 246200000602 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 246200000603 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 246200000604 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 246200000605 putative active site [active] 246200000606 heme pocket [chemical binding]; other site 246200000607 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 246200000608 dimer interface [polypeptide binding]; other site 246200000609 phosphorylation site [posttranslational modification] 246200000610 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 246200000611 ATP binding site [chemical binding]; other site 246200000612 Mg2+ binding site [ion binding]; other site 246200000613 G-X-G motif; other site 246200000614 Response regulator receiver domain; Region: Response_reg; pfam00072 246200000615 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 246200000616 active site 246200000617 phosphorylation site [posttranslational modification] 246200000618 intermolecular recognition site; other site 246200000619 dimerization interface [polypeptide binding]; other site 246200000620 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 246200000621 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 246200000622 putative active site [active] 246200000623 putative FMN binding site [chemical binding]; other site 246200000624 putative substrate binding site [chemical binding]; other site 246200000625 putative catalytic residue [active] 246200000626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200000627 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 246200000628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200000629 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 246200000630 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 246200000631 putative active site [active] 246200000632 putative FMN binding site [chemical binding]; other site 246200000633 putative substrate binding site [chemical binding]; other site 246200000634 putative catalytic residue [active] 246200000635 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200000636 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 246200000637 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200000638 Helix-turn-helix domains; Region: HTH; cl00088 246200000639 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 246200000640 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 246200000641 N-acetyl-D-glucosamine binding site [chemical binding]; other site 246200000642 flagellar biosynthesis protein FlhA; Validated; Region: flhA; cl07980 246200000643 FHIPEP family; Region: FHIPEP; pfam00771 246200000644 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 246200000645 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 246200000646 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 246200000647 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 246200000648 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 246200000649 Flagellar L-ring protein; Region: FlgH; cl00905 246200000650 SAF domain; Region: SAF; cl00555 246200000651 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 246200000652 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 246200000653 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 246200000654 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12690 246200000655 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 246200000656 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 246200000657 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 246200000658 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12632 246200000659 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 246200000660 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 246200000661 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 246200000662 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12627 246200000663 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 246200000664 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200000665 Walker A motif; other site 246200000666 ATP binding site [chemical binding]; other site 246200000667 Walker B motif; other site 246200000668 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 246200000669 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 246200000670 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 246200000671 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 246200000672 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 246200000673 active site 246200000674 phosphorylation site [posttranslational modification] 246200000675 intermolecular recognition site; other site 246200000676 dimerization interface [polypeptide binding]; other site 246200000677 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 246200000678 DNA binding site [nucleotide binding] 246200000679 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 246200000680 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 246200000681 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 246200000682 dimer interface [polypeptide binding]; other site 246200000683 phosphorylation site [posttranslational modification] 246200000684 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 246200000685 ATP binding site [chemical binding]; other site 246200000686 Mg2+ binding site [ion binding]; other site 246200000687 G-X-G motif; other site 246200000688 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 246200000689 choline dehydrogenase; Validated; Region: PRK02106 246200000690 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 246200000691 flagellar motor protein MotB; Validated; Region: motB; PRK09041 246200000692 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 246200000693 ligand binding site [chemical binding]; other site 246200000694 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 246200000695 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 246200000696 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 246200000697 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 246200000698 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 246200000699 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 246200000700 Flagella basal body rod protein; Region: Flg_bb_rod; cl15245 246200000701 Domain of unknown function (DUF1078); Region: DUF1078; pfam06429 246200000702 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 246200000703 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 246200000704 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 246200000705 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 246200000706 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 246200000707 FliP family; Region: FliP; cl00593 246200000708 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 246200000709 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 246200000710 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 246200000711 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 246200000712 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 246200000713 MgtE intracellular N domain; Region: MgtE_N; cl15244 246200000714 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 246200000715 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 246200000716 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 246200000717 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200000718 Helix-turn-helix domains; Region: HTH; cl00088 246200000719 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 246200000720 dimerization interface [polypeptide binding]; other site 246200000721 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200000722 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200000723 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200000724 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 246200000725 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200000726 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 246200000727 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 246200000728 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 246200000729 tartrate dehydrogenase; Provisional; Region: PRK08194 246200000730 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 246200000731 Helix-turn-helix domains; Region: HTH; cl00088 246200000732 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 246200000733 dimerization interface [polypeptide binding]; other site 246200000734 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200000735 NAD(P) binding site [chemical binding]; other site 246200000736 active site 246200000737 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 246200000738 substrate binding site [chemical binding]; other site 246200000739 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 246200000740 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 246200000741 substrate binding site [chemical binding]; other site 246200000742 ligand binding site [chemical binding]; other site 246200000743 Mechanosensitive ion channel; Region: MS_channel; pfam00924 246200000744 Domain of unknown function DUF143; Region: DUF143; cl00519 246200000745 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 246200000746 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 246200000747 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 246200000748 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 246200000749 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 246200000750 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200000751 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200000752 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 246200000753 putative DNA binding site [nucleotide binding]; other site 246200000754 putative Zn2+ binding site [ion binding]; other site 246200000755 Helix-turn-helix domains; Region: HTH; cl00088 246200000756 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 246200000757 Transcriptional regulators [Transcription]; Region: MarR; COG1846 246200000758 Helix-turn-helix domains; Region: HTH; cl00088 246200000759 Cytochrome P450; Region: p450; cl12078 246200000760 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 246200000761 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200000762 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200000763 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200000764 EamA-like transporter family; Region: EamA; cl01037 246200000765 EamA-like transporter family; Region: EamA; cl01037 246200000766 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 246200000767 Helix-turn-helix domains; Region: HTH; cl00088 246200000768 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 246200000769 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 246200000770 NAD(P) binding site [chemical binding]; other site 246200000771 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 246200000772 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 246200000773 NADP binding site [chemical binding]; other site 246200000774 dimer interface [polypeptide binding]; other site 246200000775 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200000776 Helix-turn-helix domains; Region: HTH; cl00088 246200000777 Helix-turn-helix domains; Region: HTH; cl00088 246200000778 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 246200000779 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200000780 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200000781 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 246200000782 tetrameric interface [polypeptide binding]; other site 246200000783 NAD binding site [chemical binding]; other site 246200000784 catalytic residues [active] 246200000785 Glycerophosphodiester phosphodiesterase domain of putative Silicibacter pomeroyi glycerophosphodiester phosphodiesterase and similar proteins; Region: GDPD_SpGDE_like; cd08567 246200000786 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 246200000787 active site 246200000788 catalytic site [active] 246200000789 metal binding site [ion binding]; metal-binding site 246200000790 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 246200000791 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 246200000792 Walker A/P-loop; other site 246200000793 ATP binding site [chemical binding]; other site 246200000794 Q-loop/lid; other site 246200000795 ABC transporter signature motif; other site 246200000796 Walker B; other site 246200000797 D-loop; other site 246200000798 H-loop/switch region; other site 246200000799 TOBE domain; Region: TOBE_2; cl01440 246200000800 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 246200000801 dimer interface [polypeptide binding]; other site 246200000802 conserved gate region; other site 246200000803 ABC-ATPase subunit interface; other site 246200000804 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 246200000805 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 246200000806 dimer interface [polypeptide binding]; other site 246200000807 conserved gate region; other site 246200000808 putative PBP binding loops; other site 246200000809 ABC-ATPase subunit interface; other site 246200000810 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 246200000811 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 246200000812 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 246200000813 Helix-turn-helix domains; Region: HTH; cl00088 246200000814 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 246200000815 putative dimerization interface [polypeptide binding]; other site 246200000816 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 246200000817 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 246200000818 TPP-binding site; other site 246200000819 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 246200000820 PYR/PP interface [polypeptide binding]; other site 246200000821 dimer interface [polypeptide binding]; other site 246200000822 TPP binding site [chemical binding]; other site 246200000823 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 246200000824 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 246200000825 substrate binding pocket [chemical binding]; other site 246200000826 chain length determination region; other site 246200000827 substrate-Mg2+ binding site; other site 246200000828 catalytic residues [active] 246200000829 aspartate-rich region 1; other site 246200000830 active site lid residues [active] 246200000831 aspartate-rich region 2; other site 246200000832 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 246200000833 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 246200000834 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 246200000835 osmolarity response regulator; Provisional; Region: ompR; PRK09468 246200000836 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 246200000837 active site 246200000838 phosphorylation site [posttranslational modification] 246200000839 intermolecular recognition site; other site 246200000840 dimerization interface [polypeptide binding]; other site 246200000841 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 246200000842 DNA binding site [nucleotide binding] 246200000843 Helix-turn-helix domains; Region: HTH; cl00088 246200000844 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 246200000845 homodimer interface [polypeptide binding]; other site 246200000846 substrate-cofactor binding pocket; other site 246200000847 Aminotransferase class IV; Region: Aminotran_4; pfam01063 246200000848 catalytic residue [active] 246200000849 OsmC-like protein; Region: OsmC; cl00767 246200000850 Helix-turn-helix domains; Region: HTH; cl00088 246200000851 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 246200000852 Predicted outer membrane protein [Function unknown]; Region: COG3652 246200000853 Cupin domain; Region: Cupin_2; cl09118 246200000854 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 246200000855 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 246200000856 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 246200000857 putative active site [active] 246200000858 putative metal binding site [ion binding]; other site 246200000859 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 246200000860 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 246200000861 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200000862 EamA-like transporter family; Region: EamA; cl01037 246200000863 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 246200000864 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 246200000865 homodimer interface [polypeptide binding]; other site 246200000866 Walker A motif; other site 246200000867 ATP binding site [chemical binding]; other site 246200000868 hydroxycobalamin binding site [chemical binding]; other site 246200000869 Walker B motif; other site 246200000870 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200000871 EamA-like transporter family; Region: EamA; cl01037 246200000872 CoA-transferase family III; Region: CoA_transf_3; pfam02515 246200000873 Membrane transport protein; Region: Mem_trans; cl09117 246200000874 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 246200000875 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 246200000876 Tetramer interface [polypeptide binding]; other site 246200000877 active site 246200000878 FMN-binding site [chemical binding]; other site 246200000879 lumazine synthase and riboflavin synthase; involved in the riboflavin (vitamin B2) biosynthetic pathway; Region: Lumazine_synthase-like; cl00317 246200000880 active site 246200000881 homopentamer interface [polypeptide binding]; other site 246200000882 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 246200000883 putative glutathione S-transferase; Provisional; Region: PRK10357 246200000884 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 246200000885 putative C-terminal domain interface [polypeptide binding]; other site 246200000886 putative GSH binding site (G-site) [chemical binding]; other site 246200000887 putative dimer interface [polypeptide binding]; other site 246200000888 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 246200000889 N-terminal domain interface [polypeptide binding]; other site 246200000890 dimer interface [polypeptide binding]; other site 246200000891 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 246200000892 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 246200000893 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 246200000894 [2Fe-2S] cluster binding site [ion binding]; other site 246200000895 cytochrome b; Provisional; Region: CYTB; MTH00191 246200000896 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 246200000897 intrachain domain interface; other site 246200000898 interchain domain interface [polypeptide binding]; other site 246200000899 heme bH binding site [chemical binding]; other site 246200000900 Qi binding site; other site 246200000901 heme bL binding site [chemical binding]; other site 246200000902 Qo binding site; other site 246200000903 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 246200000904 interchain domain interface [polypeptide binding]; other site 246200000905 intrachain domain interface; other site 246200000906 Qi binding site; other site 246200000907 Qo binding site; other site 246200000908 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 246200000909 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 246200000910 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 246200000911 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 246200000912 DNA binding residues [nucleotide binding] 246200000913 dimerization interface [polypeptide binding]; other site 246200000914 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 246200000915 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 246200000916 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 246200000917 FeS/SAM binding site; other site 246200000918 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 246200000919 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 246200000920 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 246200000921 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 246200000922 Domain of unknown function (DUF205); Region: DUF205; cl00410 246200000923 dihydroorotase; Validated; Region: PRK09059 246200000924 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 246200000925 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 246200000926 active site 246200000927 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 246200000928 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 246200000929 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200000930 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 246200000931 Fe-S cluster binding site [ion binding]; other site 246200000932 active site 246200000933 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 246200000934 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 246200000935 active site 246200000936 metal binding site [ion binding]; metal-binding site 246200000937 LysE type translocator; Region: LysE; cl00565 246200000938 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 246200000939 MPT binding site; other site 246200000940 trimer interface [polypeptide binding]; other site 246200000941 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 246200000942 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 246200000943 Protein export membrane protein; Region: SecD_SecF; cl14618 246200000944 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 246200000945 nudix motif; other site 246200000946 Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4233 246200000947 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 246200000948 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 246200000949 SUA5 domain; Region: SUA5; pfam03481 246200000950 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200000951 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200000952 active site 246200000953 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 246200000954 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200000955 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 246200000956 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 246200000957 active site 246200000958 catalytic site [active] 246200000959 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 246200000960 AzlC protein; Region: AzlC; cl00570 246200000961 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 246200000962 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 246200000963 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 246200000964 GTP binding site; other site 246200000965 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 246200000966 Walker A motif; other site 246200000967 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional; Region: PRK14495 246200000968 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK14690 246200000969 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 246200000970 dimer interface [polypeptide binding]; other site 246200000971 putative functional site; other site 246200000972 putative MPT binding site; other site 246200000973 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 246200000974 domain; Region: GreA_GreB_N; pfam03449 246200000975 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 246200000976 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200000977 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; cd06587 246200000978 active site 246200000979 metal binding site [ion binding]; metal-binding site 246200000980 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 246200000981 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 246200000982 DNA binding residues [nucleotide binding] 246200000983 dimer interface [polypeptide binding]; other site 246200000984 [2Fe-2S] cluster binding site [ion binding]; other site 246200000985 EthD protein; Region: EthD; cl06234 246200000986 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200000987 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 246200000988 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 246200000989 Ferredoxin [Energy production and conversion]; Region: COG1146 246200000990 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 246200000991 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 246200000992 binding surface 246200000993 TPR motif; other site 246200000994 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 246200000995 binding surface 246200000996 TPR motif; other site 246200000997 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 246200000998 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 246200000999 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 246200001000 binding surface 246200001001 TPR motif; other site 246200001002 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 246200001003 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 246200001004 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 246200001005 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 246200001006 substrate binding pocket [chemical binding]; other site 246200001007 chain length determination region; other site 246200001008 substrate-Mg2+ binding site; other site 246200001009 catalytic residues [active] 246200001010 aspartate-rich region 1; other site 246200001011 active site lid residues [active] 246200001012 aspartate-rich region 2; other site 246200001013 Protein of unknown function (DUF2007); Region: DUF2007; pfam09413 246200001014 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 246200001015 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; cl12011 246200001016 Protein of unknown function (DUF465); Region: DUF465; cl01070 246200001017 EamA-like transporter family; Region: EamA; cl01037 246200001018 aromatic amino acid exporter; Provisional; Region: PRK11689 246200001019 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200001020 Helix-turn-helix domains; Region: HTH; cl00088 246200001021 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 246200001022 dimerization interface [polypeptide binding]; other site 246200001023 substrate binding pocket [chemical binding]; other site 246200001024 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 246200001025 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 246200001026 NAD(P) binding site [chemical binding]; other site 246200001027 homotetramer interface [polypeptide binding]; other site 246200001028 homodimer interface [polypeptide binding]; other site 246200001029 active site 246200001030 putative acyltransferase; Provisional; Region: PRK05790 246200001031 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 246200001032 dimer interface [polypeptide binding]; other site 246200001033 active site 246200001034 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 246200001035 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 246200001036 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 246200001037 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 246200001038 catalytic residues [active] 246200001039 argininosuccinate lyase; Provisional; Region: PRK00855 246200001040 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 246200001041 active sites [active] 246200001042 tetramer interface [polypeptide binding]; other site 246200001043 diaminopimelate decarboxylase; Region: lysA; TIGR01048 246200001044 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 246200001045 active site 246200001046 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 246200001047 substrate binding site [chemical binding]; other site 246200001048 catalytic residues [active] 246200001049 dimer interface [polypeptide binding]; other site 246200001050 TIGR02302 family protein; Region: aProt_lowcomp 246200001051 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 246200001052 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 246200001053 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 246200001054 Walker A/P-loop; other site 246200001055 ATP binding site [chemical binding]; other site 246200001056 Q-loop/lid; other site 246200001057 ABC transporter signature motif; other site 246200001058 Walker B; other site 246200001059 D-loop; other site 246200001060 H-loop/switch region; other site 246200001061 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 246200001062 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 246200001063 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 246200001064 putative acyl-acceptor binding pocket; other site 246200001065 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 246200001066 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001067 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001068 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 246200001069 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 246200001070 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 246200001071 E3 interaction surface; other site 246200001072 lipoyl attachment site [posttranslational modification]; other site 246200001073 e3 binding domain; Region: E3_binding; pfam02817 246200001074 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 246200001075 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 246200001076 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 246200001077 TPP-binding site [chemical binding]; other site 246200001078 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 246200001079 Protein of unknown function (DUF805); Region: DUF805; cl01224 246200001080 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 246200001081 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001082 CoA-ligase; Region: Ligase_CoA; pfam00549 246200001083 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 246200001084 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 246200001085 CoA-ligase; Region: Ligase_CoA; pfam00549 246200001086 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 246200001087 malate dehydrogenase; Reviewed; Region: PRK06223 246200001088 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 246200001089 NAD(P) binding site [chemical binding]; other site 246200001090 dimer interface [polypeptide binding]; other site 246200001091 tetramer (dimer of dimers) interface [polypeptide binding]; other site 246200001092 substrate binding site [chemical binding]; other site 246200001093 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 246200001094 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 246200001095 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 246200001096 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 246200001097 putative active site [active] 246200001098 putative catalytic site [active] 246200001099 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 246200001100 putative active site [active] 246200001101 putative catalytic site [active] 246200001102 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 246200001103 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 246200001104 metal ion-dependent adhesion site (MIDAS); other site 246200001105 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 246200001106 Iron-sulfur protein interface; other site 246200001107 proximal quinone binding site [chemical binding]; other site 246200001108 SdhD (CybS) interface [polypeptide binding]; other site 246200001109 proximal heme binding site [chemical binding]; other site 246200001110 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 246200001111 putative SdhC subunit interface [polypeptide binding]; other site 246200001112 putative proximal heme binding site [chemical binding]; other site 246200001113 putative Iron-sulfur protein interface [polypeptide binding]; other site 246200001114 putative proximal quinone binding site; other site 246200001115 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 246200001116 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001117 domain; Region: Succ_DH_flav_C; pfam02910 246200001118 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 246200001119 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 246200001120 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200001121 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200001122 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 246200001123 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 246200001124 dimer interface [polypeptide binding]; other site 246200001125 active site 246200001126 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 246200001127 catalytic residues [active] 246200001128 substrate binding site [chemical binding]; other site 246200001129 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 246200001130 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 246200001131 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 246200001132 K-box region; Region: K-box; pfam01486 246200001133 H-NS histone family; Region: Histone_HNS; pfam00816 246200001134 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 246200001135 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, MeaA-like subfamily; contains various methylmalonyl coenzyme A (CoA) mutase (MCM)-like proteins similar to the Streptomyces cinnamonensis MeaA, Methylobacterium extorquens MeaA...; Region: MM_CoA_mutase_MeaA; cd03681 246200001136 putative active site [active] 246200001137 putative substrate binding site [chemical binding]; other site 246200001138 putative coenzyme B12 binding site [chemical binding]; other site 246200001139 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 246200001140 B12 binding site [chemical binding]; other site 246200001141 cobalt ligand [ion binding]; other site 246200001142 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200001143 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200001144 putative acyl-acceptor binding pocket; other site 246200001145 crotonyl-CoA reductase; Region: crotonyl_coA_red; cd08246 246200001146 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 246200001147 putative NAD(P) binding site [chemical binding]; other site 246200001148 Autoinducer binding domain; Region: Autoind_bind; pfam03472 246200001149 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 246200001150 DNA binding residues [nucleotide binding] 246200001151 dimerization interface [polypeptide binding]; other site 246200001152 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200001153 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 246200001154 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 246200001155 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; cl09826 246200001156 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 246200001157 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 246200001158 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 246200001159 TM-ABC transporter signature motif; other site 246200001160 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 246200001161 TM-ABC transporter signature motif; other site 246200001162 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 246200001163 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 246200001164 Walker A/P-loop; other site 246200001165 ATP binding site [chemical binding]; other site 246200001166 Q-loop/lid; other site 246200001167 ABC transporter signature motif; other site 246200001168 Walker B; other site 246200001169 D-loop; other site 246200001170 H-loop/switch region; other site 246200001171 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 246200001172 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 246200001173 ligand binding site [chemical binding]; other site 246200001174 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 246200001175 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200001176 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 246200001177 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 246200001178 NifU-like domain; Region: NifU; cl00484 246200001179 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 246200001180 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 246200001181 CGNR zinc finger; Region: zf-CGNR; pfam11706 246200001182 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 246200001183 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 246200001184 putative catalytic residue [active] 246200001185 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 246200001186 Ligand Binding Site [chemical binding]; other site 246200001187 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 246200001188 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 246200001189 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 246200001190 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 246200001191 homodimer interface [polypeptide binding]; other site 246200001192 substrate-cofactor binding pocket; other site 246200001193 Aminotransferase class IV; Region: Aminotran_4; pfam01063 246200001194 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200001195 catalytic residue [active] 246200001196 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200001197 Helix-turn-helix domains; Region: HTH; cl00088 246200001198 Helix-turn-helix domains; Region: HTH; cl00088 246200001199 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 246200001200 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 246200001201 NAD binding site [chemical binding]; other site 246200001202 Phe binding site; other site 246200001203 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_12; cd07255 246200001204 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200001205 putative metal binding site [ion binding]; other site 246200001206 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 246200001207 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 246200001208 active site 246200001209 HIGH motif; other site 246200001210 dimer interface [polypeptide binding]; other site 246200001211 KMSKS motif; other site 246200001212 Rhomboid family; Region: Rhomboid; cl11446 246200001213 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 246200001214 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 246200001215 ligand binding site [chemical binding]; other site 246200001216 flexible hinge region; other site 246200001217 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 246200001218 PII uridylyl-transferase; Provisional; Region: PRK05092 246200001219 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 246200001220 metal binding triad; other site 246200001221 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 246200001222 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 246200001223 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 246200001224 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 246200001225 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 246200001226 putative ligand binding site [chemical binding]; other site 246200001227 Predicted methyltransferases [General function prediction only]; Region: COG0313 246200001228 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 246200001229 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 246200001230 glutathione synthetase; Provisional; Region: PRK05246 246200001231 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 246200001232 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 246200001233 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 246200001234 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 246200001235 Walker A motif; other site 246200001236 ATP binding site [chemical binding]; other site 246200001237 Walker B motif; other site 246200001238 arginine finger; other site 246200001239 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 246200001240 glutathione S-transferase; Provisional; Region: PRK15113 246200001241 putative C-terminal domain interface [polypeptide binding]; other site 246200001242 putative GSH binding site (G-site) [chemical binding]; other site 246200001243 putative dimer interface [polypeptide binding]; other site 246200001244 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 246200001245 putative N-terminal domain interface [polypeptide binding]; other site 246200001246 putative dimer interface [polypeptide binding]; other site 246200001247 putative substrate binding pocket (H-site) [chemical binding]; other site 246200001248 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 246200001249 catalytic core [active] 246200001250 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 246200001251 homotrimer interface [polypeptide binding]; other site 246200001252 Walker A motif; other site 246200001253 GTP binding site [chemical binding]; other site 246200001254 Walker B motif; other site 246200001255 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 246200001256 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 246200001257 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 246200001258 DNA binding residues [nucleotide binding] 246200001259 Protein of unknown function, DUF399; Region: DUF399; cl01139 246200001260 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 246200001261 Flavoprotein; Region: Flavoprotein; cl08021 246200001262 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 246200001263 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 246200001264 trimer interface [polypeptide binding]; other site 246200001265 active site 246200001266 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 246200001267 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 246200001268 ATP binding site [chemical binding]; other site 246200001269 substrate interface [chemical binding]; other site 246200001270 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 246200001271 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 246200001272 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200001273 catalytic residue [active] 246200001274 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 246200001275 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 246200001276 active site 246200001277 Zn binding site [ion binding]; other site 246200001278 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 246200001279 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001280 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 246200001281 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 246200001282 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 246200001283 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 246200001284 rod shape-determining protein MreC; Region: MreC; pfam04085 246200001285 rod shape-determining protein MreB; Provisional; Region: PRK13927 246200001286 Cell division protein FtsA; Region: FtsA; cl11496 246200001287 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 246200001288 2-isopropylmalate synthase; Validated; Region: PRK00915 246200001289 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 246200001290 active site 246200001291 catalytic residues [active] 246200001292 metal binding site [ion binding]; metal-binding site 246200001293 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 246200001294 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 246200001295 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 246200001296 non-specific DNA binding site [nucleotide binding]; other site 246200001297 salt bridge; other site 246200001298 sequence-specific DNA binding site [nucleotide binding]; other site 246200001299 Cupin domain; Region: Cupin_2; cl09118 246200001300 H+ Antiporter protein; Region: 2A0121; TIGR00900 246200001301 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 246200001302 putative substrate translocation pore; other site 246200001303 phosphatidylinositol phosphate kinase; Provisional; Region: PLN03185 246200001304 phosphatidylinositol phosphate kinase; Provisional; Region: PLN03185 246200001305 MORN repeat; Region: MORN; cl14787 246200001306 NAD synthetase; Provisional; Region: PRK13981 246200001307 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 246200001308 multimer interface [polypeptide binding]; other site 246200001309 active site 246200001310 catalytic triad [active] 246200001311 protein interface 1 [polypeptide binding]; other site 246200001312 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 246200001313 homodimer interface [polypeptide binding]; other site 246200001314 NAD binding pocket [chemical binding]; other site 246200001315 ATP binding pocket [chemical binding]; other site 246200001316 Mg binding site [ion binding]; other site 246200001317 active-site loop [active] 246200001318 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200001319 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001320 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001321 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200001322 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 246200001323 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 246200001324 HIGH motif; other site 246200001325 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 246200001326 active site 246200001327 KMSKS motif; other site 246200001328 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 246200001329 putative active site pocket [active] 246200001330 dimerization interface [polypeptide binding]; other site 246200001331 putative catalytic residue [active] 246200001332 Helix-turn-helix domains; Region: HTH; cl00088 246200001333 Rrf2 family protein; Region: rrf2_super; TIGR00738 246200001334 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 246200001335 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 246200001336 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 246200001337 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 246200001338 Walker A/P-loop; other site 246200001339 ATP binding site [chemical binding]; other site 246200001340 Q-loop/lid; other site 246200001341 ABC transporter signature motif; other site 246200001342 Walker B; other site 246200001343 D-loop; other site 246200001344 H-loop/switch region; other site 246200001345 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 246200001346 active site 246200001347 catalytic triad [active] 246200001348 oxyanion hole [active] 246200001349 switch loop; other site 246200001350 Uncharacterised ACR, COG2135; Region: DUF159; cl03646 246200001351 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 246200001352 DNA-binding site [nucleotide binding]; DNA binding site 246200001353 RNA-binding motif; other site 246200001354 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 246200001355 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 246200001356 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 246200001357 thioredoxin 2; Provisional; Region: PRK10996 246200001358 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 246200001359 catalytic residues [active] 246200001360 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 246200001361 Transposase IS200 like; Region: Y1_Tnp; cl00848 246200001362 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 246200001363 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200001364 Walker A/P-loop; other site 246200001365 ATP binding site [chemical binding]; other site 246200001366 Q-loop/lid; other site 246200001367 ABC transporter signature motif; other site 246200001368 Walker B; other site 246200001369 D-loop; other site 246200001370 H-loop/switch region; other site 246200001371 ABC transporter; Region: ABC_tran_2; pfam12848 246200001372 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 246200001373 MOSC domain; Region: MOSC; pfam03473 246200001374 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 246200001375 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 246200001376 active site 246200001377 (T/H)XGH motif; other site 246200001378 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 246200001379 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl15297 246200001380 tellurite resistance protein terB; Region: terB; cd07176 246200001381 putative metal binding site [ion binding]; other site 246200001382 Cupin domain; Region: Cupin_2; cl09118 246200001383 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 246200001384 Helix-turn-helix domains; Region: HTH; cl00088 246200001385 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 246200001386 dimerization interface [polypeptide binding]; other site 246200001387 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 246200001388 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 246200001389 active site 246200001390 nucleotide binding site [chemical binding]; other site 246200001391 HIGH motif; other site 246200001392 KMSKS motif; other site 246200001393 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 246200001394 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 246200001395 ParA-like protein; Provisional; Region: PHA02518 246200001396 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 246200001397 P-loop; other site 246200001398 Magnesium ion binding site [ion binding]; other site 246200001399 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 246200001400 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 246200001401 Ligand Binding Site [chemical binding]; other site 246200001402 Zc3h12a-like Ribonuclease NYN domain; Region: RNase_Zc3h12a; pfam11977 246200001403 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 246200001404 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 246200001405 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 246200001406 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 246200001407 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200001408 DNA-binding site [nucleotide binding]; DNA binding site 246200001409 UTRA domain; Region: UTRA; cl01230 246200001410 Phosphonate metabolism protein PhnG; Region: PhnG; cl01454 246200001411 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 246200001412 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; cl01456 246200001413 Phosphonate metabolism protein PhnJ; Region: PhnJ; cl01457 246200001414 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 246200001415 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 246200001416 Walker A/P-loop; other site 246200001417 ATP binding site [chemical binding]; other site 246200001418 Q-loop/lid; other site 246200001419 ABC transporter signature motif; other site 246200001420 Walker B; other site 246200001421 D-loop; other site 246200001422 H-loop/switch region; other site 246200001423 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200001424 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 246200001425 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200001426 Walker A/P-loop; other site 246200001427 ATP binding site [chemical binding]; other site 246200001428 Q-loop/lid; other site 246200001429 ABC transporter signature motif; other site 246200001430 Walker B; other site 246200001431 D-loop; other site 246200001432 H-loop/switch region; other site 246200001433 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200001434 active site 246200001435 Protein of unknown function (DUF1045); Region: DUF1045; cl15435 246200001436 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 246200001437 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 246200001438 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 246200001439 active site 246200001440 Excalibur calcium-binding domain; Region: Excalibur; cl05460 246200001441 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 246200001442 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 246200001443 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 246200001444 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 246200001445 Coenzyme A binding pocket [chemical binding]; other site 246200001446 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200001447 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 246200001448 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 246200001449 Phage Tail Collar Domain; Region: Collar; pfam07484 246200001450 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 246200001451 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 246200001452 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 246200001453 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 246200001454 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 246200001455 putative translocon binding site; other site 246200001456 protein-rRNA interface [nucleotide binding]; other site 246200001457 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 246200001458 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 246200001459 G-X-X-G motif; other site 246200001460 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 246200001461 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 246200001462 23S rRNA interface [nucleotide binding]; other site 246200001463 5S rRNA interface [nucleotide binding]; other site 246200001464 putative antibiotic binding site [chemical binding]; other site 246200001465 L25 interface [polypeptide binding]; other site 246200001466 L27 interface [polypeptide binding]; other site 246200001467 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 246200001468 conserved hypothetical protein; Region: TIGR02466 246200001469 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 246200001470 ligand binding site [chemical binding]; other site 246200001471 flexible hinge region; other site 246200001472 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 246200001473 23S rRNA interface [nucleotide binding]; other site 246200001474 putative translocon interaction site; other site 246200001475 signal recognition particle (SRP54) interaction site; other site 246200001476 L23 interface [polypeptide binding]; other site 246200001477 trigger factor interaction site; other site 246200001478 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 246200001479 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 246200001480 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 246200001481 KOW motif; Region: KOW; cl00354 246200001482 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 246200001483 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 246200001484 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 246200001485 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 246200001486 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 246200001487 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 246200001488 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 246200001489 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 246200001490 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 246200001491 5S rRNA interface [nucleotide binding]; other site 246200001492 23S rRNA interface [nucleotide binding]; other site 246200001493 L5 interface [polypeptide binding]; other site 246200001494 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 246200001495 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 246200001496 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 246200001497 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 246200001498 23S rRNA binding site [nucleotide binding]; other site 246200001499 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 246200001500 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 246200001501 SecY translocase; Region: SecY; pfam00344 246200001502 adenylate kinase; Reviewed; Region: adk; PRK00279 246200001503 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 246200001504 AMP-binding site [chemical binding]; other site 246200001505 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 246200001506 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 246200001507 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 246200001508 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 246200001509 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 246200001510 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 246200001511 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 246200001512 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 246200001513 alphaNTD - beta interaction site [polypeptide binding]; other site 246200001514 alphaNTD homodimer interface [polypeptide binding]; other site 246200001515 alphaNTD - beta' interaction site [polypeptide binding]; other site 246200001516 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 246200001517 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 246200001518 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 246200001519 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 246200001520 protein binding site [polypeptide binding]; other site 246200001521 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 246200001522 protein binding site [polypeptide binding]; other site 246200001523 recombination factor protein RarA; Reviewed; Region: PRK13342 246200001524 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 246200001525 Walker A motif; other site 246200001526 ATP binding site [chemical binding]; other site 246200001527 Walker B motif; other site 246200001528 arginine finger; other site 246200001529 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 246200001530 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 246200001531 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 246200001532 RNA binding surface [nucleotide binding]; other site 246200001533 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 246200001534 active site 246200001535 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 246200001536 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 246200001537 motif II; other site 246200001538 ATP12 chaperone protein; Region: ATP12; cl02228 246200001539 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 246200001540 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 246200001541 substrate binding pocket [chemical binding]; other site 246200001542 membrane-bound complex binding site; other site 246200001543 hinge residues; other site 246200001544 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 246200001545 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 246200001546 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 246200001547 dimer interface [polypeptide binding]; other site 246200001548 ABC-ATPase subunit interface; other site 246200001549 putative PBP binding loops; other site 246200001550 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 246200001551 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 246200001552 dimer interface [polypeptide binding]; other site 246200001553 conserved gate region; other site 246200001554 putative PBP binding loops; other site 246200001555 ABC-ATPase subunit interface; other site 246200001556 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 246200001557 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 246200001558 Walker A/P-loop; other site 246200001559 ATP binding site [chemical binding]; other site 246200001560 Q-loop/lid; other site 246200001561 ABC transporter signature motif; other site 246200001562 Walker B; other site 246200001563 D-loop; other site 246200001564 H-loop/switch region; other site 246200001565 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 246200001566 catalytic core [active] 246200001567 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 246200001568 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 246200001569 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 246200001570 feedback inhibition sensing region; other site 246200001571 homohexameric interface [polypeptide binding]; other site 246200001572 nucleotide binding site [chemical binding]; other site 246200001573 N-acetyl-L-glutamate binding site [chemical binding]; other site 246200001574 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 246200001575 classical (c) SDRs; Region: SDR_c; cd05233 246200001576 NAD(P) binding site [chemical binding]; other site 246200001577 active site 246200001578 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 246200001579 Predicted GTPase [General function prediction only]; Region: COG0218 246200001580 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 246200001581 G1 box; other site 246200001582 GTP/Mg2+ binding site [chemical binding]; other site 246200001583 Switch I region; other site 246200001584 G2 box; other site 246200001585 G3 box; other site 246200001586 Switch II region; other site 246200001587 G4 box; other site 246200001588 G5 box; other site 246200001589 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 246200001590 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 246200001591 MOSC domain; Region: MOSC; pfam03473 246200001592 membrane protein insertase; Provisional; Region: PRK01318 246200001593 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 246200001594 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 246200001595 metal binding site [ion binding]; metal-binding site 246200001596 active site 246200001597 I-site; other site 246200001598 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 246200001599 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 246200001600 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 246200001601 Ligand Binding Site [chemical binding]; other site 246200001602 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 246200001603 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 246200001604 Domain of unknown function DUF37; Region: DUF37; cl00506 246200001605 Ribonuclease P; Region: Ribonuclease_P; cl00457 246200001606 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 246200001607 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 246200001608 mercuric reductase; Validated; Region: PRK06370 246200001609 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001610 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 246200001611 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 246200001612 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 246200001613 ATP binding site [chemical binding]; other site 246200001614 Mg2+ binding site [ion binding]; other site 246200001615 G-X-G motif; other site 246200001616 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001617 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200001618 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001619 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200001620 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200001621 excinuclease ABC subunit B; Provisional; Region: PRK05298 246200001622 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 246200001623 ATP binding site [chemical binding]; other site 246200001624 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 246200001625 nucleotide binding region [chemical binding]; other site 246200001626 ATP-binding site [chemical binding]; other site 246200001627 Ultra-violet resistance protein B; Region: UvrB; pfam12344 246200001628 UvrB/uvrC motif; Region: UVR; pfam02151 246200001629 Transposase IS200 like; Region: Y1_Tnp; cl00848 246200001630 S-adenosyl-L-methionine methyltransferase; Region: Methyltransf_17; pfam12692 246200001631 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 246200001632 NodB motif; other site 246200001633 putative active site [active] 246200001634 putative catalytic site [active] 246200001635 putative Zn binding site [ion binding]; other site 246200001636 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 246200001637 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 246200001638 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 246200001639 catalytic core [active] 246200001640 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 246200001641 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 246200001642 putative ADP-binding pocket [chemical binding]; other site 246200001643 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 246200001644 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 246200001645 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 246200001646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001647 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 246200001648 Mechanosensitive ion channel; Region: MS_channel; pfam00924 246200001649 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 246200001650 dimer interface [polypeptide binding]; other site 246200001651 conserved gate region; other site 246200001652 putative PBP binding loops; other site 246200001653 ABC-ATPase subunit interface; other site 246200001654 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200001655 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 246200001656 dimer interface [polypeptide binding]; other site 246200001657 conserved gate region; other site 246200001658 putative PBP binding loops; other site 246200001659 ABC-ATPase subunit interface; other site 246200001660 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200001661 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_4; cd08500 246200001662 S-adenosyl-L-methionine methyltransferase; Region: Methyltransf_17; pfam12692 246200001663 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200001664 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 246200001665 putative C-terminal domain interface [polypeptide binding]; other site 246200001666 putative GSH binding site (G-site) [chemical binding]; other site 246200001667 putative dimer interface [polypeptide binding]; other site 246200001668 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 246200001669 putative N-terminal domain interface [polypeptide binding]; other site 246200001670 putative dimer interface [polypeptide binding]; other site 246200001671 putative substrate binding pocket (H-site) [chemical binding]; other site 246200001672 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200001673 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001674 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200001675 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200001676 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 246200001677 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200001678 Helix-turn-helix domains; Region: HTH; cl00088 246200001679 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200001680 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001681 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 246200001682 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 246200001683 dimer interface [polypeptide binding]; other site 246200001684 PYR/PP interface [polypeptide binding]; other site 246200001685 TPP binding site [chemical binding]; other site 246200001686 substrate binding site [chemical binding]; other site 246200001687 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 246200001688 TPP-binding site [chemical binding]; other site 246200001689 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 246200001690 Helix-turn-helix domains; Region: HTH; cl00088 246200001691 FecR protein; Region: FecR; pfam04773 246200001692 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 246200001693 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 246200001694 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 246200001695 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 246200001696 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 246200001697 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 246200001698 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 246200001699 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 246200001700 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 246200001701 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 246200001702 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 246200001703 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 246200001704 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 246200001705 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 246200001706 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 246200001707 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 246200001708 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 246200001709 dimerization interface [polypeptide binding]; other site 246200001710 cyclase homology domain; Region: CHD; cd07302 246200001711 nucleotidyl binding site; other site 246200001712 metal binding site [ion binding]; metal-binding site 246200001713 dimer interface [polypeptide binding]; other site 246200001714 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 246200001715 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 246200001716 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 246200001717 Walker A/P-loop; other site 246200001718 ATP binding site [chemical binding]; other site 246200001719 Q-loop/lid; other site 246200001720 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200001721 ABC transporter signature motif; other site 246200001722 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200001723 Walker B; other site 246200001724 Walker B; other site 246200001725 D-loop; other site 246200001726 D-loop; other site 246200001727 H-loop/switch region; other site 246200001728 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 246200001729 ligand binding site [chemical binding]; other site 246200001730 flexible hinge region; other site 246200001731 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200001732 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200001733 active site 246200001734 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 246200001735 Helix-turn-helix domains; Region: HTH; cl00088 246200001736 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 246200001737 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 246200001738 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 246200001739 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 246200001740 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 246200001741 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 246200001742 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 246200001743 carboxyltransferase (CT) interaction site; other site 246200001744 biotinylation site [posttranslational modification]; other site 246200001745 Nitronate monooxygenase; Region: NMO; pfam03060 246200001746 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 246200001747 FMN binding site [chemical binding]; other site 246200001748 substrate binding site [chemical binding]; other site 246200001749 putative catalytic residue [active] 246200001750 TIGR03084 family protein; Region: TIGR03084 246200001751 DinB superfamily; Region: DinB_2; cl00986 246200001752 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200001753 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200001754 active site 246200001755 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200001756 Helix-turn-helix domains; Region: HTH; cl00088 246200001757 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 246200001758 dimerization interface [polypeptide binding]; other site 246200001759 aspartate aminotransferase; Provisional; Region: PRK05764 246200001760 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 246200001761 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200001762 homodimer interface [polypeptide binding]; other site 246200001763 catalytic residue [active] 246200001764 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 246200001765 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 246200001766 tetramer interface [polypeptide binding]; other site 246200001767 TPP-binding site [chemical binding]; other site 246200001768 heterodimer interface [polypeptide binding]; other site 246200001769 phosphorylation loop region [posttranslational modification] 246200001770 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 246200001771 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 246200001772 alpha subunit interface [polypeptide binding]; other site 246200001773 TPP binding site [chemical binding]; other site 246200001774 heterodimer interface [polypeptide binding]; other site 246200001775 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 246200001776 Acyl transferase domain; Region: Acyl_transf_1; cl08282 246200001777 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001778 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200001779 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200001780 Helix-turn-helix domains; Region: HTH; cl00088 246200001781 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 246200001782 substrate binding pocket [chemical binding]; other site 246200001783 dimerization interface [polypeptide binding]; other site 246200001784 reductive dehalogenase; Region: RDH; TIGR02486 246200001785 reductive dehalogenase; Region: RDH; TIGR02486 246200001786 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 246200001787 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 246200001788 FMN-binding pocket [chemical binding]; other site 246200001789 flavin binding motif; other site 246200001790 phosphate binding motif [ion binding]; other site 246200001791 beta-alpha-beta structure motif; other site 246200001792 NAD binding pocket [chemical binding]; other site 246200001793 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 246200001794 catalytic loop [active] 246200001795 iron binding site [ion binding]; other site 246200001796 Transcriptional regulators [Transcription]; Region: PurR; COG1609 246200001797 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 246200001798 DNA binding site [nucleotide binding] 246200001799 domain linker motif; other site 246200001800 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 246200001801 putative dimerization interface [polypeptide binding]; other site 246200001802 putative ligand binding site [chemical binding]; other site 246200001803 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200001804 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200001805 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200001806 DctM-like transporters; Region: DctM; pfam06808 246200001807 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200001808 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 246200001809 histidinol dehydrogenase; Region: hisD; TIGR00069 246200001810 NAD binding site [chemical binding]; other site 246200001811 dimerization interface [polypeptide binding]; other site 246200001812 product binding site; other site 246200001813 substrate binding site [chemical binding]; other site 246200001814 zinc binding site [ion binding]; other site 246200001815 catalytic residues [active] 246200001816 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001817 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 246200001818 NAD(P) binding site [chemical binding]; other site 246200001819 active site 246200001820 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 246200001821 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 246200001822 NAD(P) binding site [chemical binding]; other site 246200001823 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 246200001824 Ligand Binding Site [chemical binding]; other site 246200001825 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 246200001826 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 246200001827 phosphate binding site [ion binding]; other site 246200001828 Arginase family; Region: Arginase; cl00306 246200001829 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 246200001830 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 246200001831 dimer interface [polypeptide binding]; other site 246200001832 active site 246200001833 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 246200001834 catalytic residues [active] 246200001835 substrate binding site [chemical binding]; other site 246200001836 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 246200001837 arginine decarboxylase; Provisional; Region: PRK05354 246200001838 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 246200001839 active site 246200001840 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 246200001841 catalytic residues [active] 246200001842 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 246200001843 Putative mono-oxygenase ydhR; Region: ydhR; cl07420 246200001844 Transcriptional regulators [Transcription]; Region: MarR; COG1846 246200001845 Helix-turn-helix domains; Region: HTH; cl00088 246200001846 Putative Aconitase X swivel domain. It is predicted by comparative genomic analysis. The proteins are mainly found in archaea and proteobacteria. They are distantly related to Aconitase family of proteins by sequence similarity and seconary structure...; Region: AcnX_swivel; cd01356 246200001847 substrate binding site [chemical binding]; other site 246200001848 Protein of unknown function (DUF521); Region: DUF521; pfam04412 246200001849 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 246200001850 substrate binding site [chemical binding]; other site 246200001851 ligand binding site [chemical binding]; other site 246200001852 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 246200001853 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 246200001854 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 246200001855 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 246200001856 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 246200001857 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 246200001858 Walker A/P-loop; other site 246200001859 ATP binding site [chemical binding]; other site 246200001860 Q-loop/lid; other site 246200001861 ABC transporter signature motif; other site 246200001862 Walker B; other site 246200001863 D-loop; other site 246200001864 H-loop/switch region; other site 246200001865 TOBE domain; Region: TOBE_2; cl01440 246200001866 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 246200001867 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 246200001868 Walker A/P-loop; other site 246200001869 ATP binding site [chemical binding]; other site 246200001870 Q-loop/lid; other site 246200001871 ABC transporter signature motif; other site 246200001872 Walker B; other site 246200001873 D-loop; other site 246200001874 H-loop/switch region; other site 246200001875 TOBE domain; Region: TOBE_2; cl01440 246200001876 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 246200001877 dimer interface [polypeptide binding]; other site 246200001878 conserved gate region; other site 246200001879 putative PBP binding loops; other site 246200001880 ABC-ATPase subunit interface; other site 246200001881 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 246200001882 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 246200001883 dimer interface [polypeptide binding]; other site 246200001884 conserved gate region; other site 246200001885 putative PBP binding loops; other site 246200001886 ABC-ATPase subunit interface; other site 246200001887 Predicted small integral membrane protein (DUF2160); Region: DUF2160; cl02294 246200001888 Helix-turn-helix domains; Region: HTH; cl00088 246200001889 Peptidase family M48; Region: Peptidase_M48; cl12018 246200001890 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 246200001891 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 246200001892 NAD(P) binding site [chemical binding]; other site 246200001893 Helix-turn-helix domain; Region: HTH_18; pfam12833 246200001894 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 246200001895 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 246200001896 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 246200001897 S-adenosylmethionine binding site [chemical binding]; other site 246200001898 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 246200001899 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 246200001900 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 246200001901 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 246200001902 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 246200001903 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 246200001904 Transposase; Region: DEDD_Tnp_IS110; pfam01548 246200001905 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 246200001906 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 246200001907 Putative water exit pathway; other site 246200001908 Putative proton exit pathway; other site 246200001909 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 246200001910 Integrase core domain; Region: rve; cl01316 246200001911 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 246200001912 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 246200001913 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 246200001914 Bacterial SH3 domain; Region: SH3_3; cl02551 246200001915 Bacterial SH3 domain; Region: SH3_3; cl02551 246200001916 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 246200001917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001918 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 246200001919 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 246200001920 D-lactate dehydrogenase [cytochrome]; Region: PLN02805 246200001921 FAD binding domain; Region: FAD_binding_4; pfam01565 246200001922 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200001923 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001924 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001925 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200001926 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200001927 transaldolase/EF-hand domain-containing protein; Provisional; Region: PRK12309 246200001928 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 246200001929 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200001930 Helix-turn-helix domains; Region: HTH; cl00088 246200001931 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 246200001932 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 246200001933 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; cl12011 246200001934 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001935 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 246200001936 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 246200001937 active site 246200001938 catalytic tetrad [active] 246200001939 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 246200001940 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 246200001941 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 246200001942 putative ligand binding site [chemical binding]; other site 246200001943 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 246200001944 TM-ABC transporter signature motif; other site 246200001945 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 246200001946 TM-ABC transporter signature motif; other site 246200001947 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 246200001948 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 246200001949 Walker A/P-loop; other site 246200001950 ATP binding site [chemical binding]; other site 246200001951 Q-loop/lid; other site 246200001952 ABC transporter signature motif; other site 246200001953 Walker B; other site 246200001954 D-loop; other site 246200001955 H-loop/switch region; other site 246200001956 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 246200001957 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 246200001958 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 246200001959 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 246200001960 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 246200001961 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 246200001962 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 246200001963 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 246200001964 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 246200001965 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 246200001966 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 246200001967 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 246200001968 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 246200001969 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 246200001970 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 246200001971 generic binding surface II; other site 246200001972 generic binding surface I; other site 246200001973 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 246200001974 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200001975 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 246200001976 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 246200001977 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 246200001978 active site 246200001979 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200001980 Helix-turn-helix domains; Region: HTH; cl00088 246200001981 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 246200001982 putative substrate binding pocket [chemical binding]; other site 246200001983 dimerization interface [polypeptide binding]; other site 246200001984 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200001985 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_13; cd08517 246200001986 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200001987 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 246200001988 dimer interface [polypeptide binding]; other site 246200001989 conserved gate region; other site 246200001990 putative PBP binding loops; other site 246200001991 ABC-ATPase subunit interface; other site 246200001992 dipeptide transporter; Provisional; Region: PRK10913 246200001993 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 246200001994 dimer interface [polypeptide binding]; other site 246200001995 conserved gate region; other site 246200001996 putative PBP binding loops; other site 246200001997 ABC-ATPase subunit interface; other site 246200001998 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 246200001999 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 246200002000 Walker A/P-loop; other site 246200002001 ATP binding site [chemical binding]; other site 246200002002 Q-loop/lid; other site 246200002003 ABC transporter signature motif; other site 246200002004 Walker B; other site 246200002005 D-loop; other site 246200002006 H-loop/switch region; other site 246200002007 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200002008 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 246200002009 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 246200002010 Walker A/P-loop; other site 246200002011 ATP binding site [chemical binding]; other site 246200002012 Q-loop/lid; other site 246200002013 ABC transporter signature motif; other site 246200002014 Walker B; other site 246200002015 D-loop; other site 246200002016 H-loop/switch region; other site 246200002017 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200002018 SlyX; Region: SlyX; cl01090 246200002019 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 246200002020 substrate binding site [chemical binding]; other site 246200002021 oxyanion hole (OAH) forming residues; other site 246200002022 trimer interface [polypeptide binding]; other site 246200002023 histidyl-tRNA synthetase; Region: hisS; TIGR00442 246200002024 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 246200002025 dimer interface [polypeptide binding]; other site 246200002026 motif 1; other site 246200002027 motif 2; other site 246200002028 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 246200002029 active site 246200002030 motif 3; other site 246200002031 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 246200002032 anticodon binding site; other site 246200002033 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 246200002034 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 246200002035 motif 1; other site 246200002036 dimer interface [polypeptide binding]; other site 246200002037 active site 246200002038 motif 2; other site 246200002039 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 246200002040 ATP phosphoribosyltransferase; Region: HisG; cl15266 246200002041 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 246200002042 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 246200002043 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 246200002044 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 246200002045 generic binding surface I; other site 246200002046 generic binding surface II; other site 246200002047 DNA Polymerase Y-family; Region: PolY_like; cd03468 246200002048 active site 246200002049 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 246200002050 DNA binding site [nucleotide binding] 246200002051 Cell division inhibitor SulA; Region: SulA; cl01880 246200002052 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 246200002053 aminotransferase; Validated; Region: PRK07678 246200002054 inhibitor-cofactor binding pocket; inhibition site 246200002055 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200002056 catalytic residue [active] 246200002057 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 246200002058 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 246200002059 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 246200002060 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 246200002061 Walker A/P-loop; other site 246200002062 ATP binding site [chemical binding]; other site 246200002063 Q-loop/lid; other site 246200002064 ABC transporter signature motif; other site 246200002065 Walker B; other site 246200002066 D-loop; other site 246200002067 H-loop/switch region; other site 246200002068 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 246200002069 dimer interface [polypeptide binding]; other site 246200002070 conserved gate region; other site 246200002071 putative PBP binding loops; other site 246200002072 ABC-ATPase subunit interface; other site 246200002073 acyl-CoA synthetase; Validated; Region: PRK08162 246200002074 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200002075 Arginase family; Region: Arginase; cl00306 246200002076 maleylacetoacetate isomerase; Region: maiA; TIGR01262 246200002077 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 246200002078 C-terminal domain interface [polypeptide binding]; other site 246200002079 GSH binding site (G-site) [chemical binding]; other site 246200002080 putative dimer interface [polypeptide binding]; other site 246200002081 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 246200002082 dimer interface [polypeptide binding]; other site 246200002083 N-terminal domain interface [polypeptide binding]; other site 246200002084 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 246200002085 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200002086 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 246200002087 Zn binding site [ion binding]; other site 246200002088 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 246200002089 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 246200002090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200002091 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200002092 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200002093 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200002094 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 246200002095 dimer interface [polypeptide binding]; other site 246200002096 putative metal binding site [ion binding]; other site 246200002097 fumarylacetoacetase; Region: PLN02856 246200002098 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 246200002099 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 246200002100 Cupin domain; Region: Cupin_2; cl09118 246200002101 Helix-turn-helix domains; Region: HTH; cl00088 246200002102 cyclase homology domain; Region: CHD; cd07302 246200002103 nucleotidyl binding site; other site 246200002104 metal binding site [ion binding]; metal-binding site 246200002105 dimer interface [polypeptide binding]; other site 246200002106 ATPase MipZ; Region: MipZ; pfam09140 246200002107 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 246200002108 P-loop; other site 246200002109 Magnesium ion binding site [ion binding]; other site 246200002110 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 246200002111 Magnesium ion binding site [ion binding]; other site 246200002112 Protein of unknown function (DUF1491); Region: DUF1491; cl11568 246200002113 GTPase Era; Reviewed; Region: era; PRK00089 246200002114 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly...; Region: Era; cd04163 246200002115 G1 box; other site 246200002116 GTP/Mg2+ binding site [chemical binding]; other site 246200002117 Switch I region; other site 246200002118 G2 box; other site 246200002119 Switch II region; other site 246200002120 G3 box; other site 246200002121 G4 box; other site 246200002122 G5 box; other site 246200002123 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 246200002124 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 246200002125 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 246200002126 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 246200002127 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200002128 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200002129 active site 246200002130 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200002131 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 246200002132 Walker A/P-loop; other site 246200002133 ATP binding site [chemical binding]; other site 246200002134 Q-loop/lid; other site 246200002135 ABC transporter signature motif; other site 246200002136 Walker B; other site 246200002137 D-loop; other site 246200002138 H-loop/switch region; other site 246200002139 TOBE domain; Region: TOBE_2; cl01440 246200002140 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 246200002141 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 246200002142 Helix-turn-helix domains; Region: HTH; cl00088 246200002143 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 246200002144 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 246200002145 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 246200002146 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 246200002147 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 246200002148 Walker A/P-loop; other site 246200002149 ATP binding site [chemical binding]; other site 246200002150 Q-loop/lid; other site 246200002151 ABC transporter signature motif; other site 246200002152 Walker B; other site 246200002153 D-loop; other site 246200002154 H-loop/switch region; other site 246200002155 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200002156 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 246200002157 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 246200002158 Walker A/P-loop; other site 246200002159 ATP binding site [chemical binding]; other site 246200002160 Q-loop/lid; other site 246200002161 ABC transporter signature motif; other site 246200002162 Walker B; other site 246200002163 D-loop; other site 246200002164 H-loop/switch region; other site 246200002165 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200002166 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 246200002167 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 246200002168 dimer interface [polypeptide binding]; other site 246200002169 conserved gate region; other site 246200002170 putative PBP binding loops; other site 246200002171 ABC-ATPase subunit interface; other site 246200002172 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200002173 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 246200002174 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_4; cd08500 246200002175 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 246200002176 Helix-turn-helix domains; Region: HTH; cl00088 246200002177 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 246200002178 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 246200002179 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 246200002180 active site 246200002181 substrate-binding site [chemical binding]; other site 246200002182 metal-binding site [ion binding] 246200002183 ATP binding site [chemical binding]; other site 246200002184 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 246200002185 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 246200002186 active site 246200002187 phosphorylation site [posttranslational modification] 246200002188 intermolecular recognition site; other site 246200002189 dimerization interface [polypeptide binding]; other site 246200002190 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 246200002191 DNA binding site [nucleotide binding] 246200002192 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 246200002193 dimerization interface [polypeptide binding]; other site 246200002194 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 246200002195 dimer interface [polypeptide binding]; other site 246200002196 phosphorylation site [posttranslational modification] 246200002197 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 246200002198 ATP binding site [chemical binding]; other site 246200002199 Mg2+ binding site [ion binding]; other site 246200002200 G-X-G motif; other site 246200002201 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 246200002202 Hpr binding site; other site 246200002203 active site 246200002204 homohexamer subunit interaction site [polypeptide binding]; other site 246200002205 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200002206 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 246200002207 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 246200002208 active pocket/dimerization site; other site 246200002209 active site 246200002210 phosphorylation site [posttranslational modification] 246200002211 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 246200002212 dimerization domain swap beta strand [polypeptide binding]; other site 246200002213 regulatory protein interface [polypeptide binding]; other site 246200002214 active site 246200002215 regulatory phosphorylation site [posttranslational modification]; other site 246200002216 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 246200002217 putative acyl-acceptor binding pocket; other site 246200002218 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 246200002219 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; cl12011 246200002220 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200002221 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 246200002222 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 246200002223 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 246200002224 Ligand binding site [chemical binding]; other site 246200002225 Electron transfer flavoprotein domain; Region: ETF; pfam01012 246200002226 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; cd06587 246200002227 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200002228 active site 246200002229 metal binding site [ion binding]; metal-binding site 246200002230 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 246200002231 short chain dehydrogenase; Provisional; Region: PRK05693 246200002232 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 246200002233 NADP binding site [chemical binding]; other site 246200002234 active site 246200002235 steroid binding site; other site 246200002236 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 246200002237 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 246200002238 CAP-like domain; other site 246200002239 active site 246200002240 primary dimer interface [polypeptide binding]; other site 246200002241 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 246200002242 elongation factor Tu; Reviewed; Region: PRK00049 246200002243 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 246200002244 G1 box; other site 246200002245 GEF interaction site [polypeptide binding]; other site 246200002246 GTP/Mg2+ binding site [chemical binding]; other site 246200002247 Switch I region; other site 246200002248 G2 box; other site 246200002249 G3 box; other site 246200002250 Switch II region; other site 246200002251 G4 box; other site 246200002252 G5 box; other site 246200002253 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 246200002254 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 246200002255 Antibiotic Binding Site [chemical binding]; other site 246200002256 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200002257 putative acyl-acceptor binding pocket; other site 246200002258 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 246200002259 Helix-turn-helix domains; Region: HTH; cl00088 246200002260 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 246200002261 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 246200002262 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200002263 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 246200002264 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 246200002265 PaaX-like protein; Region: PaaX; pfam07848 246200002266 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 246200002267 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 246200002268 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 246200002269 substrate binding site [chemical binding]; other site 246200002270 dimer interface [polypeptide binding]; other site 246200002271 NADP binding site [chemical binding]; other site 246200002272 catalytic residues [active] 246200002273 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 246200002274 active site 2 [active] 246200002275 active site 1 [active] 246200002276 DctM-like transporters; Region: DctM; pfam06808 246200002277 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200002278 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200002279 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200002280 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 246200002281 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 246200002282 substrate binding site [chemical binding]; other site 246200002283 oxyanion hole (OAH) forming residues; other site 246200002284 trimer interface [polypeptide binding]; other site 246200002285 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; cl12011 246200002286 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200002287 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200002288 enoyl-CoA hydratase; Provisional; Region: PRK08140 246200002289 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 246200002290 substrate binding site [chemical binding]; other site 246200002291 oxyanion hole (OAH) forming residues; other site 246200002292 trimer interface [polypeptide binding]; other site 246200002293 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 246200002294 CoenzymeA binding site [chemical binding]; other site 246200002295 subunit interaction site [polypeptide binding]; other site 246200002296 PHB binding site; other site 246200002297 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200002298 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200002299 Helix-turn-helix domains; Region: HTH; cl00088 246200002300 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 246200002301 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 246200002302 active site 246200002303 catalytic residues [active] 246200002304 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 246200002305 active site 246200002306 Uncharacterized bacterial family of heme peroxidases; Region: An_peroxidase_bacterial_1; cd09819 246200002307 putative heme binding site [chemical binding]; other site 246200002308 putative substrate binding site [chemical binding]; other site 246200002309 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 246200002310 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 246200002311 cyclase homology domain; Region: CHD; cd07302 246200002312 nucleotidyl binding site; other site 246200002313 metal binding site [ion binding]; metal-binding site 246200002314 dimer interface [polypeptide binding]; other site 246200002315 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 246200002316 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 246200002317 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 246200002318 FAD binding pocket [chemical binding]; other site 246200002319 FAD binding motif [chemical binding]; other site 246200002320 phosphate binding motif [ion binding]; other site 246200002321 beta-alpha-beta structure motif; other site 246200002322 NAD(p) ribose binding residues [chemical binding]; other site 246200002323 NAD binding pocket [chemical binding]; other site 246200002324 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 246200002325 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 246200002326 catalytic loop [active] 246200002327 iron binding site [ion binding]; other site 246200002328 Domain of unknown function DUF59; Region: DUF59; cl00941 246200002329 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 246200002330 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 246200002331 Phenylacetic acid degradation B; Region: PaaB; cl01371 246200002332 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 246200002333 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 246200002334 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 246200002335 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 246200002336 dimer interface [polypeptide binding]; other site 246200002337 active site 246200002338 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 246200002339 Putative cyclase; Region: Cyclase; cl00814 246200002340 Transcriptional regulators [Transcription]; Region: FadR; COG2186 246200002341 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200002342 DNA-binding site [nucleotide binding]; DNA binding site 246200002343 FCD domain; Region: FCD; cl11656 246200002344 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 246200002345 catalytic triad [active] 246200002346 Cytochrome P450; Region: p450; cl12078 246200002347 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 246200002348 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 246200002349 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 246200002350 catalytic loop [active] 246200002351 iron binding site [ion binding]; other site 246200002352 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; cl12011 246200002353 Helix-turn-helix domains; Region: HTH; cl00088 246200002354 Transcriptional regulator [Transcription]; Region: IclR; COG1414 246200002355 Bacterial transcriptional regulator; Region: IclR; pfam01614 246200002356 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 246200002357 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 246200002358 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 246200002359 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 246200002360 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 246200002361 substrate binding site [chemical binding]; other site 246200002362 oxyanion hole (OAH) forming residues; other site 246200002363 trimer interface [polypeptide binding]; other site 246200002364 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; cl12011 246200002365 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200002366 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 246200002367 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 246200002368 dimer interface [polypeptide binding]; other site 246200002369 active site 246200002370 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 246200002371 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 246200002372 FAD binding site [chemical binding]; other site 246200002373 substrate binding site [chemical binding]; other site 246200002374 catalytic base [active] 246200002375 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 246200002376 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 246200002377 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 246200002378 active site 246200002379 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 246200002380 CoenzymeA binding site [chemical binding]; other site 246200002381 subunit interaction site [polypeptide binding]; other site 246200002382 PHB binding site; other site 246200002383 enoyl-CoA hydratase; Provisional; Region: PRK07511 246200002384 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 246200002385 substrate binding site [chemical binding]; other site 246200002386 oxyanion hole (OAH) forming residues; other site 246200002387 trimer interface [polypeptide binding]; other site 246200002388 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 246200002389 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200002390 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 246200002391 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 246200002392 substrate binding site [chemical binding]; other site 246200002393 hexamer interface [polypeptide binding]; other site 246200002394 metal binding site [ion binding]; metal-binding site 246200002395 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 246200002396 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 246200002397 Walker A/P-loop; other site 246200002398 ATP binding site [chemical binding]; other site 246200002399 Q-loop/lid; other site 246200002400 ABC transporter signature motif; other site 246200002401 Walker B; other site 246200002402 D-loop; other site 246200002403 H-loop/switch region; other site 246200002404 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 246200002405 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 246200002406 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 246200002407 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 246200002408 dimer interface [polypeptide binding]; other site 246200002409 conserved gate region; other site 246200002410 putative PBP binding loops; other site 246200002411 ABC-ATPase subunit interface; other site 246200002412 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 246200002413 dimer interface [polypeptide binding]; other site 246200002414 conserved gate region; other site 246200002415 ABC-ATPase subunit interface; other site 246200002416 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 246200002417 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 246200002418 trimer interface [polypeptide binding]; other site 246200002419 active site 246200002420 substrate binding site [chemical binding]; other site 246200002421 CoA binding site [chemical binding]; other site 246200002422 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 246200002423 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 246200002424 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 246200002425 active site 246200002426 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 246200002427 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 246200002428 motif II; other site 246200002429 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200002430 Hemin uptake protein hemP; Region: hemP; cl10043 246200002431 hypothetical protein; Provisional; Region: PRK06148 246200002432 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 246200002433 active site 246200002434 ATP binding site [chemical binding]; other site 246200002435 substrate binding site [chemical binding]; other site 246200002436 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 246200002437 inhibitor-cofactor binding pocket; inhibition site 246200002438 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200002439 catalytic residue [active] 246200002440 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 246200002441 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200002442 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 246200002443 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 246200002444 DNA binding residues [nucleotide binding] 246200002445 dimer interface [polypeptide binding]; other site 246200002446 copper binding site [ion binding]; other site 246200002447 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 246200002448 metal-binding site [ion binding] 246200002449 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 246200002450 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 246200002451 metal-binding site [ion binding] 246200002452 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 246200002453 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 246200002454 motif II; other site 246200002455 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 246200002456 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200002457 NAD(P) binding site [chemical binding]; other site 246200002458 active site 246200002459 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 246200002460 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 246200002461 putative NAD(P) binding site [chemical binding]; other site 246200002462 active site 246200002463 putative substrate binding site [chemical binding]; other site 246200002464 Membrane transport protein; Region: Mem_trans; cl09117 246200002465 bile acid transporter; Region: bass; TIGR00841 246200002466 Flavin-binding monooxygenase-like; Region: FMO-like; pfam00743 246200002467 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200002468 Helix-turn-helix domains; Region: HTH; cl00088 246200002469 Sulfatase; Region: Sulfatase; cl10460 246200002470 choline-sulfatase; Region: chol_sulfatase; TIGR03417 246200002471 4-coumarate--CoA ligase; Region: PLN02246 246200002472 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200002473 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 246200002474 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 246200002475 RNA binding site [nucleotide binding]; other site 246200002476 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 246200002477 RNA binding site [nucleotide binding]; other site 246200002478 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 246200002479 RNA binding site [nucleotide binding]; other site 246200002480 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 246200002481 RNA binding site [nucleotide binding]; other site 246200002482 S1_RPS1_repeat_ec5: 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_ec5; cd05690 246200002483 RNA binding site [nucleotide binding]; other site 246200002484 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 246200002485 RNA binding site [nucleotide binding]; other site 246200002486 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 246200002487 nudix motif; other site 246200002488 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 246200002489 IHF dimer interface [polypeptide binding]; other site 246200002490 IHF - DNA interface [nucleotide binding]; other site 246200002491 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 246200002492 active site 246200002493 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 246200002494 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 246200002495 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200002496 catalytic residue [active] 246200002497 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; cl01467 246200002498 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 246200002499 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 246200002500 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 246200002501 putative active site [active] 246200002502 catalytic residue [active] 246200002503 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 246200002504 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 246200002505 5S rRNA interface [nucleotide binding]; other site 246200002506 CTC domain interface [polypeptide binding]; other site 246200002507 L16 interface [polypeptide binding]; other site 246200002508 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 246200002509 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 246200002510 active site 246200002511 substrate binding site [chemical binding]; other site 246200002512 FMN binding site [chemical binding]; other site 246200002513 putative catalytic residues [active] 246200002514 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 246200002515 putative active site [active] 246200002516 putative catalytic site [active] 246200002517 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 246200002518 substrate binding site [chemical binding]; other site 246200002519 active site 246200002520 catalytic residues [active] 246200002521 heterodimer interface [polypeptide binding]; other site 246200002522 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 246200002523 GTP-binding protein YchF; Reviewed; Region: PRK09601 246200002524 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 246200002525 G1 box; other site 246200002526 GTP/Mg2+ binding site [chemical binding]; other site 246200002527 Switch I region; other site 246200002528 G2 box; other site 246200002529 Switch II region; other site 246200002530 G3 box; other site 246200002531 G4 box; other site 246200002532 G5 box; other site 246200002533 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 246200002534 MAPEG family; Region: MAPEG; cl09190 246200002535 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 246200002536 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 246200002537 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; cd01292 246200002538 active site 246200002539 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 246200002540 CoA-transferase family III; Region: CoA_transf_3; pfam02515 246200002541 Helix-turn-helix domains; Region: HTH; cl00088 246200002542 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200002543 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 246200002544 Walker A/P-loop; other site 246200002545 ATP binding site [chemical binding]; other site 246200002546 Q-loop/lid; other site 246200002547 ABC transporter signature motif; other site 246200002548 Walker B; other site 246200002549 D-loop; other site 246200002550 H-loop/switch region; other site 246200002551 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200002552 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 246200002553 Walker A/P-loop; other site 246200002554 ATP binding site [chemical binding]; other site 246200002555 Q-loop/lid; other site 246200002556 ABC transporter signature motif; other site 246200002557 Walker B; other site 246200002558 D-loop; other site 246200002559 H-loop/switch region; other site 246200002560 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 246200002561 TM-ABC transporter signature motif; other site 246200002562 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 246200002563 TM-ABC transporter signature motif; other site 246200002564 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 246200002565 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 246200002566 putative ligand binding site [chemical binding]; other site 246200002567 Protein of unknown function (DUF1185); Region: DUF1185; pfam06684 246200002568 Protein of unknown function (DUF1185); Region: DUF1185; pfam06684 246200002569 ApbE family; Region: ApbE; cl00643 246200002570 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 246200002571 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 246200002572 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 246200002573 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 246200002574 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 246200002575 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 246200002576 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200002577 Helix-turn-helix domains; Region: HTH; cl00088 246200002578 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 246200002579 dimerization interface [polypeptide binding]; other site 246200002580 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 246200002581 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 246200002582 putative dimer interface [polypeptide binding]; other site 246200002583 [2Fe-2S] cluster binding site [ion binding]; other site 246200002584 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 246200002585 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 246200002586 SLBB domain; Region: SLBB; pfam10531 246200002587 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 246200002588 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 246200002589 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 246200002590 catalytic loop [active] 246200002591 iron binding site [ion binding]; other site 246200002592 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 246200002593 4Fe-4S binding domain; Region: Fer4; cl02805 246200002594 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 246200002595 [4Fe-4S] binding site [ion binding]; other site 246200002596 molybdopterin cofactor binding site; other site 246200002597 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_CT_Formate-Dh_H; cd02790 246200002598 molybdopterin cofactor binding site; other site 246200002599 Putative cyclase; Region: Cyclase; cl00814 246200002600 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 246200002601 active site 246200002602 Bacterial sugar transferase; Region: Bac_transf; cl00939 246200002603 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 246200002604 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 246200002605 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 246200002606 MatE; Region: MatE; cl10513 246200002607 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 246200002608 putative ADP-binding pocket [chemical binding]; other site 246200002609 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 246200002610 active site 246200002611 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 246200002612 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 246200002613 N-terminal formyl transferase catalytic core domain of NRPS_like proteins, one of the proteins involved in the synthesis of Oxazolomycin; Region: FMT_core_NRPS_like; cd08649 246200002614 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 246200002615 putative active site [active] 246200002616 putative substrate binding site [chemical binding]; other site 246200002617 putative cosubstrate binding site; other site 246200002618 catalytic site [active] 246200002619 C-terminal subdomain of the Formyltransferase-like domain found in OzmH-like proteins; Region: FMT_C_OzmH_like; cd08700 246200002620 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200002621 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 246200002622 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 246200002623 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200002624 Phosphopantetheine attachment site; Region: PP-binding; cl09936 246200002625 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 246200002626 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 246200002627 Probable Catalytic site; other site 246200002628 metal-binding site 246200002629 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 246200002630 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 246200002631 active site 246200002632 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 246200002633 Acyl transferase domain; Region: Acyl_transf_1; cl08282 246200002634 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 246200002635 putative NADP binding site [chemical binding]; other site 246200002636 active site 246200002637 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 246200002638 peptide synthase; Provisional; Region: PRK12316 246200002639 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 246200002640 Phosphopantetheine attachment site; Region: PP-binding; cl09936 246200002641 O-Antigen ligase; Region: Wzy_C; cl04850 246200002642 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 246200002643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200002644 putative oxidoreductase; Provisional; Region: PRK10206 246200002645 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 246200002646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200002647 NAD(P) binding site [chemical binding]; other site 246200002648 active site 246200002649 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 246200002650 active site 246200002651 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 246200002652 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 246200002653 D-xylulose kinases, Escherichia coli xylulokinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 246200002654 N- and C-terminal domain interface [polypeptide binding]; other site 246200002655 D-xylulose kinase; Region: XylB; TIGR01312 246200002656 active site 246200002657 catalytic site [active] 246200002658 metal binding site [ion binding]; metal-binding site 246200002659 xylulose binding site [chemical binding]; other site 246200002660 putative ATP binding site [chemical binding]; other site 246200002661 homodimer interface [polypeptide binding]; other site 246200002662 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 246200002663 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 246200002664 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 246200002665 active site 246200002666 catalytic residues [active] 246200002667 His-Xaa-Ser system putative quinone modification maturase; Region: SAM_quin_mod; TIGR03981 246200002668 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 246200002669 Helix-turn-helix domains; Region: HTH; cl00088 246200002670 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 246200002671 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 246200002672 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 246200002673 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 246200002674 putative ligand binding site [chemical binding]; other site 246200002675 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 246200002676 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 246200002677 TM-ABC transporter signature motif; other site 246200002678 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200002679 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 246200002680 Walker A/P-loop; other site 246200002681 ATP binding site [chemical binding]; other site 246200002682 Q-loop/lid; other site 246200002683 ABC transporter signature motif; other site 246200002684 Walker B; other site 246200002685 D-loop; other site 246200002686 H-loop/switch region; other site 246200002687 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 246200002688 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 246200002689 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200002690 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 246200002691 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 246200002692 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 246200002693 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 246200002694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 246200002695 Family of unknown function (DUF490); Region: DUF490; pfam04357 246200002696 Family of unknown function (DUF490); Region: DUF490; pfam04357 246200002697 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 246200002698 Surface antigen; Region: Bac_surface_Ag; cl03097 246200002699 Predicted membrane protein [Function unknown]; Region: COG3748 246200002700 Protein of unknown function (DUF989); Region: DUF989; pfam06181 246200002701 Cytochrome c; Region: Cytochrom_C; cl11414 246200002702 transcriptional regulator; Provisional; Region: PRK10632 246200002703 Helix-turn-helix domains; Region: HTH; cl00088 246200002704 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 246200002705 dimerization interface [polypeptide binding]; other site 246200002706 putative effector binding pocket; other site 246200002707 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 246200002708 active site 246200002709 homotetramer interface [polypeptide binding]; other site 246200002710 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 246200002711 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 246200002712 active site 246200002713 catalytic site [active] 246200002714 tetramer interface [polypeptide binding]; other site 246200002715 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 246200002716 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; cl01250 246200002717 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 246200002718 Permease family; Region: Xan_ur_permease; cl00967 246200002719 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 246200002720 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 246200002721 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 246200002722 hypothetical protein; Provisional; Region: PRK11171 246200002723 Cupin domain; Region: Cupin_2; cl09118 246200002724 Cupin domain; Region: Cupin_2; cl09118 246200002725 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200002726 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 246200002727 lipoyl attachment site [posttranslational modification]; other site 246200002728 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200002729 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200002730 active site 246200002731 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 246200002732 active site 2 [active] 246200002733 active site 1 [active] 246200002734 Protein of unknown function (DUF1007); Region: DUF1007; cl01487 246200002735 High-affinity nickel-transport protein; Region: NicO; cl00964 246200002736 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 246200002737 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 246200002738 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 246200002739 oligomerisation interface [polypeptide binding]; other site 246200002740 mobile loop; other site 246200002741 roof hairpin; other site 246200002742 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 246200002743 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 246200002744 ring oligomerisation interface [polypeptide binding]; other site 246200002745 ATP/Mg binding site [chemical binding]; other site 246200002746 stacking interactions; other site 246200002747 hinge regions; other site 246200002748 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 246200002749 Coenzyme A binding pocket [chemical binding]; other site 246200002750 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200002751 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 246200002752 nucleophilic elbow; other site 246200002753 catalytic triad; other site 246200002754 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 246200002755 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 246200002756 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 246200002757 active site 246200002758 Phosphoribosylaminoimidazole carboxylase (NCAIR synthetase) [Nucleotide transport and metabolism]; Region: PurK; COG0026 246200002759 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 246200002760 AIR carboxylase; Region: AIRC; cl00310 246200002761 Protein of unknown function (DUF465); Region: DUF465; cl01070 246200002762 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 246200002763 putative dimer interface [polypeptide binding]; other site 246200002764 Protein of unknown function (DUF1150); Region: DUF1150; cl11577 246200002765 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 246200002766 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 246200002767 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 246200002768 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 246200002769 ATP-sulfurylase; Region: ATPS; cd00517 246200002770 active site 246200002771 HXXH motif; other site 246200002772 flexible loop; other site 246200002773 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 246200002774 ligand-binding site [chemical binding]; other site 246200002775 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 246200002776 catalytic loop [active] 246200002777 iron binding site [ion binding]; other site 246200002778 cyclase homology domain; Region: CHD; cd07302 246200002779 nucleotidyl binding site; other site 246200002780 metal binding site [ion binding]; metal-binding site 246200002781 dimer interface [polypeptide binding]; other site 246200002782 RES domain; Region: RES; cl02411 246200002783 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 246200002784 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200002785 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200002786 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 246200002787 putative DNA binding site [nucleotide binding]; other site 246200002788 putative Zn2+ binding site [ion binding]; other site 246200002789 Helix-turn-helix domains; Region: HTH; cl00088 246200002790 Hint domain; Region: Hint_2; pfam13403 246200002791 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 246200002792 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 246200002793 Uncharacterized conserved protein [Function unknown]; Region: COG1565 246200002794 Uncharacterized ACR, COG1565; Region: DUF185; pfam02636 246200002795 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 246200002796 Membrane fusogenic activity; Region: BMFP; cl01115 246200002797 Family of unknown function (DUF1790); Region: DUF1790; cl02283 246200002798 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 246200002799 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200002800 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 246200002801 dimer interface [polypeptide binding]; other site 246200002802 putative tRNA-binding site [nucleotide binding]; other site 246200002803 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 246200002804 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200002805 Thymidine kinase; Region: TK; cl00631 246200002806 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; cl01837 246200002807 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; cd06587 246200002808 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200002809 active site 246200002810 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 246200002811 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 246200002812 dimer interface [polypeptide binding]; other site 246200002813 active site 246200002814 CoA binding pocket [chemical binding]; other site 246200002815 Transcriptional regulators [Transcription]; Region: MarR; COG1846 246200002816 Helix-turn-helix domains; Region: HTH; cl00088 246200002817 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 246200002818 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 246200002819 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 246200002820 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200002821 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 246200002822 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 246200002823 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 246200002824 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 246200002825 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 246200002826 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 246200002827 IMP binding site; other site 246200002828 dimer interface [polypeptide binding]; other site 246200002829 partial ornithine binding site; other site 246200002830 aminodeoxychorismate synthase; Provisional; Region: PRK07508 246200002831 chorismate binding enzyme; Region: Chorismate_bind; cl10555 246200002832 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 246200002833 substrate-cofactor binding pocket; other site 246200002834 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 246200002835 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 246200002836 dimer interface [polypeptide binding]; other site 246200002837 anticodon binding site; other site 246200002838 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 246200002839 motif 1; other site 246200002840 dimer interface [polypeptide binding]; other site 246200002841 active site 246200002842 motif 2; other site 246200002843 GAD domain; Region: GAD; pfam02938 246200002844 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 246200002845 active site 246200002846 motif 3; other site 246200002847 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 246200002848 MT-A70; Region: MT-A70; cl01947 246200002849 Response regulator receiver domain; Region: Response_reg; pfam00072 246200002850 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 246200002851 active site 246200002852 phosphorylation site [posttranslational modification] 246200002853 intermolecular recognition site; other site 246200002854 dimerization interface [polypeptide binding]; other site 246200002855 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200002856 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 246200002857 dimer interface [polypeptide binding]; other site 246200002858 substrate binding site [chemical binding]; other site 246200002859 metal binding site [ion binding]; metal-binding site 246200002860 Protein of unknown function (DUF1467); Region: DUF1467; cl11569 246200002861 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 246200002862 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 246200002863 putative FMN binding site [chemical binding]; other site 246200002864 Uncharacterised ACR, YggU family COG1872; Region: DUF167; cl00811 246200002865 Peptidase family M48; Region: Peptidase_M48; cl12018 246200002866 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 246200002867 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 246200002868 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; cl02748 246200002869 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 246200002870 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 246200002871 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 246200002872 FeS/SAM binding site; other site 246200002873 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 246200002874 AsmA family; Region: AsmA; pfam05170 246200002875 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 246200002876 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 246200002877 active site 246200002878 substrate binding site [chemical binding]; other site 246200002879 metal binding site [ion binding]; metal-binding site 246200002880 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 246200002881 NeuB family; Region: NeuB; cl00496 246200002882 Vi polysaccharide export inner membrane protein VexD; Provisional; Region: PRK15178 246200002883 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 246200002884 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 246200002885 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200002886 Walker A/P-loop; other site 246200002887 ATP binding site [chemical binding]; other site 246200002888 Q-loop/lid; other site 246200002889 ABC transporter signature motif; other site 246200002890 Walker B; other site 246200002891 D-loop; other site 246200002892 H-loop/switch region; other site 246200002893 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 246200002894 ligand binding site [chemical binding]; other site 246200002895 active site 246200002896 putative S-transferase; Provisional; Region: PRK11752 246200002897 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 246200002898 C-terminal domain interface [polypeptide binding]; other site 246200002899 GSH binding site (G-site) [chemical binding]; other site 246200002900 dimer interface [polypeptide binding]; other site 246200002901 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 246200002902 dimer interface [polypeptide binding]; other site 246200002903 N-terminal domain interface [polypeptide binding]; other site 246200002904 active site 246200002905 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 246200002906 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 246200002907 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 246200002908 active site 246200002909 GcrA cell cycle regulator; Region: GcrA; cl11564 246200002910 ABC-2 type transporter; Region: ABC2_membrane; cl11417 246200002911 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200002912 EamA-like transporter family; Region: EamA; cl01037 246200002913 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 246200002914 DNA binding residues [nucleotide binding] 246200002915 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 246200002916 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 246200002917 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 246200002918 inhibitor-cofactor binding pocket; inhibition site 246200002919 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200002920 catalytic residue [active] 246200002921 ornithine carbamoyltransferase; Provisional; Region: PRK00779 246200002922 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 246200002923 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200002924 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 246200002925 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200002926 Uncharacterized conserved protein [Function unknown]; Region: COG3603 246200002927 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 246200002928 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200002929 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 246200002930 Phosphate transporter family; Region: PHO4; cl00396 246200002931 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_9; cd04666 246200002932 nudix motif; other site 246200002933 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 246200002934 amphipathic channel; other site 246200002935 Asn-Pro-Ala signature motifs; other site 246200002936 choline dehydrogenase; Validated; Region: PRK02106 246200002937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200002938 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200002939 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 246200002940 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 246200002941 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 246200002942 ATP binding site [chemical binding]; other site 246200002943 putative Mg++ binding site [ion binding]; other site 246200002944 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200002945 Helicase associated domain (HA2); Region: HA2; cl04503 246200002946 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 246200002947 membrane ATPase/protein kinase; Provisional; Region: PRK09435 246200002948 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 246200002949 Walker A; other site 246200002950 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 246200002951 Protein of unknown function (DUF461); Region: DUF461; cl01071 246200002952 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200002953 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 246200002954 Low molecular weight phosphatase family; Region: LMWPc; cd00115 246200002955 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 246200002956 active site 246200002957 Helix-turn-helix domains; Region: HTH; cl00088 246200002958 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 246200002959 dimerization interface [polypeptide binding]; other site 246200002960 histidinol dehydrogenase; Region: hisD; TIGR00069 246200002961 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 246200002962 dimerization interface [polypeptide binding]; other site 246200002963 NAD binding site [chemical binding]; other site 246200002964 product binding site; other site 246200002965 substrate binding site [chemical binding]; other site 246200002966 zinc binding site [ion binding]; other site 246200002967 catalytic residues [active] 246200002968 GTP-binding protein LepA; Provisional; Region: PRK05433 246200002969 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 246200002970 G1 box; other site 246200002971 putative GEF interaction site [polypeptide binding]; other site 246200002972 GTP/Mg2+ binding site [chemical binding]; other site 246200002973 Switch I region; other site 246200002974 G2 box; other site 246200002975 G3 box; other site 246200002976 Switch II region; other site 246200002977 G4 box; other site 246200002978 G5 box; other site 246200002979 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 246200002980 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 246200002981 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 246200002982 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 246200002983 ABC-ATPase subunit interface; other site 246200002984 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 246200002985 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 246200002986 Helix-turn-helix domains; Region: HTH; cl00088 246200002987 metal binding site 2 [ion binding]; metal-binding site 246200002988 putative DNA binding helix; other site 246200002989 metal binding site 1 [ion binding]; metal-binding site 246200002990 dimer interface [polypeptide binding]; other site 246200002991 structural Zn2+ binding site [ion binding]; other site 246200002992 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 246200002993 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 246200002994 metal binding site [ion binding]; metal-binding site 246200002995 putative inner membrane protein; Provisional; Region: PRK11099 246200002996 YeeE/YedE family (DUF395); Region: DUF395; cl01018 246200002997 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 246200002998 dimerization interface [polypeptide binding]; other site 246200002999 putative DNA binding site [nucleotide binding]; other site 246200003000 putative Zn2+ binding site [ion binding]; other site 246200003001 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 246200003002 LysE type translocator; Region: LysE; cl00565 246200003003 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 246200003004 catalytic residues [active] 246200003005 Cytochrome c; Region: Cytochrom_C; cl11414 246200003006 Predicted secreted protein [Function unknown]; Region: COG5501; cl02313 246200003007 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 246200003008 Cytochrome c [Energy production and conversion]; Region: COG3258 246200003009 Cytochrome c [Energy production and conversion]; Region: COG3258 246200003010 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 246200003011 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 246200003012 active site 246200003013 metal binding site [ion binding]; metal-binding site 246200003014 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 246200003015 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 246200003016 Moco binding site; other site 246200003017 metal coordination site [ion binding]; other site 246200003018 Cytochrome c; Region: Cytochrom_C; cl11414 246200003019 Cytochrome c; Region: Cytochrom_C; cl11414 246200003020 Cytochrome c; Region: Cytochrom_C; cl11414 246200003021 Cytochrome c; Region: Cytochrom_C; cl11414 246200003022 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 246200003023 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 246200003024 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200003025 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 246200003026 conserved cys residue [active] 246200003027 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200003028 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 246200003029 oligomer interface [polypeptide binding]; other site 246200003030 active site residues [active] 246200003031 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 246200003032 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 246200003033 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200003034 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 246200003035 Walker A motif; other site 246200003036 ATP binding site [chemical binding]; other site 246200003037 Walker B motif; other site 246200003038 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 246200003039 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_6; cd06154 246200003040 homotrimer interaction site [polypeptide binding]; other site 246200003041 putative active site [active] 246200003042 NADH ubiquinone oxidoreductase subunit NDUFA12; Region: NDUFA12; cl01534 246200003043 mce related protein; Region: MCE; cl15431 246200003044 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; cl01970 246200003045 Leucyl/phenylalanyl-tRNA protein transferase; Region: Leu_Phe_trans; cl01006 246200003046 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 246200003047 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 246200003048 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 246200003049 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 246200003050 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 246200003051 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 246200003052 carboxyltransferase (CT) interaction site; other site 246200003053 biotinylation site [posttranslational modification]; other site 246200003054 PAS domain S-box; Region: sensory_box; TIGR00229 246200003055 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 246200003056 putative active site [active] 246200003057 heme pocket [chemical binding]; other site 246200003058 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 246200003059 DNA binding residues [nucleotide binding] 246200003060 dimerization interface [polypeptide binding]; other site 246200003061 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 246200003062 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 246200003063 active site 246200003064 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 246200003065 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200003066 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200003067 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 246200003068 NAD(P) binding site [chemical binding]; other site 246200003069 active site 246200003070 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 246200003071 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200003072 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 246200003073 Walker A/P-loop; other site 246200003074 ATP binding site [chemical binding]; other site 246200003075 Q-loop/lid; other site 246200003076 ABC transporter signature motif; other site 246200003077 Walker B; other site 246200003078 D-loop; other site 246200003079 H-loop/switch region; other site 246200003080 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200003081 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 246200003082 Walker A/P-loop; other site 246200003083 ATP binding site [chemical binding]; other site 246200003084 Q-loop/lid; other site 246200003085 ABC transporter signature motif; other site 246200003086 Walker B; other site 246200003087 D-loop; other site 246200003088 H-loop/switch region; other site 246200003089 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 246200003090 TM-ABC transporter signature motif; other site 246200003091 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 246200003092 TM-ABC transporter signature motif; other site 246200003093 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 246200003094 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 246200003095 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 246200003096 putative ligand binding site [chemical binding]; other site 246200003097 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 246200003098 non-specific DNA binding site [nucleotide binding]; other site 246200003099 salt bridge; other site 246200003100 sequence-specific DNA binding site [nucleotide binding]; other site 246200003101 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 246200003102 Response regulator receiver domain; Region: Response_reg; pfam00072 246200003103 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 246200003104 active site 246200003105 phosphorylation site [posttranslational modification] 246200003106 intermolecular recognition site; other site 246200003107 dimerization interface [polypeptide binding]; other site 246200003108 Sodium:solute symporter family; Region: SSF; cl00456 246200003109 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 246200003110 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 246200003111 dimer interface [polypeptide binding]; other site 246200003112 phosphorylation site [posttranslational modification] 246200003113 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 246200003114 ATP binding site [chemical binding]; other site 246200003115 Mg2+ binding site [ion binding]; other site 246200003116 G-X-G motif; other site 246200003117 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 246200003118 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 246200003119 YeeE/YedE family (DUF395); Region: DUF395; cl01018 246200003120 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 246200003121 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 246200003122 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200003123 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; cl11480 246200003124 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 246200003125 Phage integrase family; Region: Phage_integrase; pfam00589 246200003126 Int/Topo IB signature motif; other site 246200003127 active site 246200003128 DNA binding site [nucleotide binding] 246200003129 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 246200003130 Predicted transcriptional regulator [Transcription]; Region: COG4742 246200003131 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 246200003132 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 246200003133 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 246200003134 putative active site [active] 246200003135 putative NTP binding site [chemical binding]; other site 246200003136 putative nucleic acid binding site [nucleotide binding]; other site 246200003137 Restriction endonuclease NotI; Region: NotI; pfam12183 246200003138 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 246200003139 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; cl12011 246200003140 cofactor binding site; other site 246200003141 DNA binding site [nucleotide binding] 246200003142 substrate interaction site [chemical binding]; other site 246200003143 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; cl12011 246200003144 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 246200003145 DNA binding site [nucleotide binding] 246200003146 Int/Topo IB signature motif; other site 246200003147 active site 246200003148 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200003149 active site 246200003150 Domain of unknown function (DUF1772); Region: DUF1772; cl12097 246200003151 Domain of unknown function (DUF4345); Region: DUF4345; pfam14248 246200003152 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200003153 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 246200003154 NAD(P) binding site [chemical binding]; other site 246200003155 active site 246200003156 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 246200003157 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 246200003158 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 246200003159 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200003160 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 246200003161 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 246200003162 putative acyl-acceptor binding pocket; other site 246200003163 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 246200003164 Catalytic domain of Protein Kinases; Region: PKc; cd00180 246200003165 active site 246200003166 ATP binding site [chemical binding]; other site 246200003167 substrate binding site [chemical binding]; other site 246200003168 activation loop (A-loop); other site 246200003169 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 246200003170 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 246200003171 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 246200003172 putative peptidoglycan binding site; other site 246200003173 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 246200003174 substrate binding pocket [chemical binding]; other site 246200003175 membrane-bound complex binding site; other site 246200003176 hinge residues; other site 246200003177 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 246200003178 putative peptidoglycan binding site; other site 246200003179 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 246200003180 substrate binding pocket [chemical binding]; other site 246200003181 membrane-bound complex binding site; other site 246200003182 hinge residues; other site 246200003183 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 246200003184 phosphopeptide binding site; other site 246200003185 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 246200003186 active site 246200003187 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200003188 G1 box; other site 246200003189 GTP/Mg2+ binding site [chemical binding]; other site 246200003190 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 246200003191 G1 box; other site 246200003192 GTP/Mg2+ binding site [chemical binding]; other site 246200003193 Switch I region; other site 246200003194 G2 box; other site 246200003195 Switch II region; other site 246200003196 G4 box; other site 246200003197 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200003198 G1 box; other site 246200003199 GTP/Mg2+ binding site [chemical binding]; other site 246200003200 G2 box; other site 246200003201 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200003202 G3 box; other site 246200003203 Switch II region; other site 246200003204 GTP/Mg2+ binding site [chemical binding]; other site 246200003205 G4 box; other site 246200003206 G5 box; other site 246200003207 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200003208 FAD binding domain; Region: FAD_binding_2; pfam00890 246200003209 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 246200003210 catalytic triad [active] 246200003211 Domain of unknown function DUF28; Region: DUF28; cl00361 246200003212 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 246200003213 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 246200003214 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 246200003215 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 246200003216 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 246200003217 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 246200003218 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 246200003219 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 246200003220 Iodotyrosine dehalogenase catalyzes the removal of iodine from the 3, 5 positions of L-tyosine in thyroid, liver and kidney, using NADPH as electron donor. This enzyme is a homolog of the nitroreductase family. These enzymes are usually homodimers; Region: iodotyrosine_dehalogenase; cd02144 246200003221 putative FMN binding site [chemical binding]; other site 246200003222 putative dimer interface [polypeptide binding]; other site 246200003223 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 246200003224 Helix-turn-helix domains; Region: HTH; cl00088 246200003225 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 246200003226 dimerization interface [polypeptide binding]; other site 246200003227 LysE type translocator; Region: LysE; cl00565 246200003228 EamA-like transporter family; Region: EamA; cl01037 246200003229 EamA-like transporter family; Region: EamA; cl01037 246200003230 Protein of unknown function (DUF1036); Region: DUF1036; cl02296 246200003231 transcriptional regulator BetI; Validated; Region: PRK00767 246200003232 Helix-turn-helix domains; Region: HTH; cl00088 246200003233 choline-sulfatase; Region: chol_sulfatase; TIGR03417 246200003234 Sulfatase; Region: Sulfatase; cl10460 246200003235 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 246200003236 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 246200003237 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 246200003238 tetramer interface [polypeptide binding]; other site 246200003239 active site 246200003240 Mg2+/Mn2+ binding site [ion binding]; other site 246200003241 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 246200003242 Helix-turn-helix domains; Region: HTH; cl00088 246200003243 BCCT family transporter; Region: BCCT; cl00569 246200003244 choline dehydrogenase; Validated; Region: PRK02106 246200003245 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200003246 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 246200003247 Protein of unknown function (DUF465); Region: DUF465; cl01070 246200003248 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 246200003249 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 246200003250 non-specific DNA binding site [nucleotide binding]; other site 246200003251 salt bridge; other site 246200003252 sequence-specific DNA binding site [nucleotide binding]; other site 246200003253 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 246200003254 Domain of unknown function (DUF955); Region: DUF955; cl01076 246200003255 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 246200003256 YCII-related domain; Region: YCII; cl00999 246200003257 Helix-turn-helix domains; Region: HTH; cl00088 246200003258 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 246200003259 dimerization interface [polypeptide binding]; other site 246200003260 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 246200003261 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200003262 putative substrate translocation pore; other site 246200003263 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 246200003264 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; cl14780 246200003265 Cupin domain; Region: Cupin_2; cl09118 246200003266 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 246200003267 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 246200003268 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 246200003269 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 246200003270 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 246200003271 carboxyltransferase (CT) interaction site; other site 246200003272 biotinylation site [posttranslational modification]; other site 246200003273 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 246200003274 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 246200003275 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 246200003276 active site 246200003277 substrate binding site [chemical binding]; other site 246200003278 coenzyme B12 binding site [chemical binding]; other site 246200003279 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 246200003280 B12 binding site [chemical binding]; other site 246200003281 cobalt ligand [ion binding]; other site 246200003282 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 246200003283 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 246200003284 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 246200003285 Coenzyme A binding pocket [chemical binding]; other site 246200003286 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 246200003287 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 246200003288 putative metal binding site [ion binding]; other site 246200003289 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 246200003290 HSP70 interaction site [polypeptide binding]; other site 246200003291 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 246200003292 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200003293 Helix-turn-helix domains; Region: HTH; cl00088 246200003294 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 246200003295 dimerization interface [polypeptide binding]; other site 246200003296 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 246200003297 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200003298 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200003299 DctM-like transporters; Region: DctM; pfam06808 246200003300 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200003301 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 246200003302 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 246200003303 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 246200003304 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 246200003305 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200003306 Domain of unknown function DUF20; Region: UPF0118; cl00465 246200003307 Autoinducer binding domain; Region: Autoind_bind; pfam03472 246200003308 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 246200003309 DNA binding residues [nucleotide binding] 246200003310 dimerization interface [polypeptide binding]; other site 246200003311 prolyl-tRNA synthetase; Provisional; Region: PRK12325 246200003312 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 246200003313 dimer interface [polypeptide binding]; other site 246200003314 motif 1; other site 246200003315 active site 246200003316 motif 2; other site 246200003317 motif 3; other site 246200003318 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 246200003319 anticodon binding site; other site 246200003320 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 246200003321 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 246200003322 FtsX-like permease family; Region: FtsX; pfam02687 246200003323 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 246200003324 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 246200003325 Walker A/P-loop; other site 246200003326 ATP binding site [chemical binding]; other site 246200003327 Q-loop/lid; other site 246200003328 ABC transporter signature motif; other site 246200003329 Walker B; other site 246200003330 D-loop; other site 246200003331 H-loop/switch region; other site 246200003332 Cytochrome c; Region: Cytochrom_C; cl11414 246200003333 Cytochrome c; Region: Cytochrom_C; cl11414 246200003334 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 246200003335 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 246200003336 CoenzymeA binding site [chemical binding]; other site 246200003337 subunit interaction site [polypeptide binding]; other site 246200003338 PHB binding site; other site 246200003339 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 246200003340 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 246200003341 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200003342 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 246200003343 Walker A/P-loop; other site 246200003344 ATP binding site [chemical binding]; other site 246200003345 Q-loop/lid; other site 246200003346 ABC transporter signature motif; other site 246200003347 Walker B; other site 246200003348 D-loop; other site 246200003349 H-loop/switch region; other site 246200003350 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 246200003351 dimer interface [polypeptide binding]; other site 246200003352 conserved gate region; other site 246200003353 putative PBP binding loops; other site 246200003354 ABC-ATPase subunit interface; other site 246200003355 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 246200003356 dimer interface [polypeptide binding]; other site 246200003357 conserved gate region; other site 246200003358 putative PBP binding loops; other site 246200003359 ABC-ATPase subunit interface; other site 246200003360 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 246200003361 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200003362 hypothetical protein; Provisional; Region: PRK07482 246200003363 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 246200003364 inhibitor-cofactor binding pocket; inhibition site 246200003365 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200003366 catalytic residue [active] 246200003367 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200003368 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 246200003369 tetramerization interface [polypeptide binding]; other site 246200003370 NAD(P) binding site [chemical binding]; other site 246200003371 catalytic residues [active] 246200003372 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200003373 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 246200003374 putative DNA binding site [nucleotide binding]; other site 246200003375 putative Zn2+ binding site [ion binding]; other site 246200003376 Helix-turn-helix domains; Region: HTH; cl00088 246200003377 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 246200003378 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 246200003379 putative active site [active] 246200003380 Zn binding site [ion binding]; other site 246200003381 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 246200003382 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 246200003383 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 246200003384 active site 246200003385 ectoine utilization protein EutC; Region: ectoine_eutC; TIGR02992 246200003386 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200003387 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 246200003388 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 246200003389 tetramer interface [polypeptide binding]; other site 246200003390 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200003391 catalytic residue [active] 246200003392 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200003393 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 246200003394 Ligand Binding Site [chemical binding]; other site 246200003395 DctM-like transporters; Region: DctM; pfam06808 246200003396 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200003397 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200003398 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200003399 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200003400 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 246200003401 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200003402 DNA-binding site [nucleotide binding]; DNA binding site 246200003403 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 246200003404 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200003405 homodimer interface [polypeptide binding]; other site 246200003406 catalytic residue [active] 246200003407 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 246200003408 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 246200003409 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 246200003410 translation initiation factor IF-2 subunit beta; Provisional; Region: PRK12336 246200003411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200003412 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 246200003413 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 246200003414 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 246200003415 substrate binding site [chemical binding]; other site 246200003416 glutamase interaction surface [polypeptide binding]; other site 246200003417 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 246200003418 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 246200003419 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 246200003420 catalytic residues [active] 246200003421 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 246200003422 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 246200003423 putative catalytic residues [active] 246200003424 Cupin domain; Region: Cupin_2; cl09118 246200003425 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200003426 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 246200003427 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 246200003428 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 246200003429 putative active site [active] 246200003430 oxyanion strand; other site 246200003431 catalytic triad [active] 246200003432 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 246200003433 putative active site pocket [active] 246200003434 4-fold oligomerization interface [polypeptide binding]; other site 246200003435 metal binding residues [ion binding]; metal-binding site 246200003436 3-fold/trimer interface [polypeptide binding]; other site 246200003437 Helix-turn-helix domains; Region: HTH; cl00088 246200003438 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 246200003439 metal ion-dependent adhesion site (MIDAS); other site 246200003440 aminotransferase; Provisional; Region: PRK06105 246200003441 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 246200003442 inhibitor-cofactor binding pocket; inhibition site 246200003443 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200003444 catalytic residue [active] 246200003445 pyruvate carboxylase; Reviewed; Region: PRK12999 246200003446 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 246200003447 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 246200003448 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 246200003449 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 246200003450 active site 246200003451 catalytic residues [active] 246200003452 metal binding site [ion binding]; metal-binding site 246200003453 homodimer binding site [polypeptide binding]; other site 246200003454 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 246200003455 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 246200003456 carboxyltransferase (CT) interaction site; other site 246200003457 biotinylation site [posttranslational modification]; other site 246200003458 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 246200003459 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 246200003460 phosphate binding site [ion binding]; other site 246200003461 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 246200003462 GAF domain; Region: GAF; cl00853 246200003463 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 246200003464 metal binding site [ion binding]; metal-binding site 246200003465 active site 246200003466 I-site; other site 246200003467 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 246200003468 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200003469 Amino acid permease; Region: AA_permease; cl00524 246200003470 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 246200003471 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 246200003472 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 246200003473 active site 246200003474 metal binding site [ion binding]; metal-binding site 246200003475 hexamer interface [polypeptide binding]; other site 246200003476 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 246200003477 MraZ protein; Region: MraZ; pfam02381 246200003478 MraZ protein; Region: MraZ; pfam02381 246200003479 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 246200003480 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; cl12011 246200003481 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 246200003482 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 246200003483 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 246200003484 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 246200003485 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 246200003486 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 246200003487 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 246200003488 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 246200003489 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 246200003490 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 246200003491 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 246200003492 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 246200003493 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 246200003494 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 246200003495 Mg++ binding site [ion binding]; other site 246200003496 putative catalytic motif [active] 246200003497 putative substrate binding site [chemical binding]; other site 246200003498 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 246200003499 binding surface 246200003500 TPR motif; other site 246200003501 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 246200003502 binding surface 246200003503 TPR motif; other site 246200003504 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 246200003505 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 246200003506 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 246200003507 Predicted flavoproteins [General function prediction only]; Region: COG2081 246200003508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200003509 Helix-turn-helix domains; Region: HTH; cl00088 246200003510 glutathionine S-transferase; Provisional; Region: PRK10542 246200003511 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 246200003512 C-terminal domain interface [polypeptide binding]; other site 246200003513 GSH binding site (G-site) [chemical binding]; other site 246200003514 dimer interface [polypeptide binding]; other site 246200003515 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 246200003516 dimer interface [polypeptide binding]; other site 246200003517 N-terminal domain interface [polypeptide binding]; other site 246200003518 substrate binding pocket (H-site) [chemical binding]; other site 246200003519 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 246200003520 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 246200003521 active site 1 [active] 246200003522 dimer interface [polypeptide binding]; other site 246200003523 hexamer interface [polypeptide binding]; other site 246200003524 active site 2 [active] 246200003525 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 246200003526 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 246200003527 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 246200003528 active site 246200003529 homodimer interface [polypeptide binding]; other site 246200003530 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 246200003531 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 246200003532 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 246200003533 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 246200003534 Amino acid permease; Region: AA_permease; cl00524 246200003535 Protein of unknown function (DUF2484); Region: DUF2484; pfam10658 246200003536 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 246200003537 FAD binding domain; Region: FAD_binding_4; pfam01565 246200003538 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 246200003539 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 246200003540 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 246200003541 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 246200003542 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 246200003543 Cell division protein FtsQ; Region: FtsQ; pfam03799 246200003544 Cell division protein FtsA; Region: FtsA; cl11496 246200003545 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 246200003546 Cell division protein FtsA; Region: FtsA; cl11496 246200003547 cell division protein FtsZ; Validated; Region: PRK09330 246200003548 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 246200003549 nucleotide binding site [chemical binding]; other site 246200003550 SulA interaction site; other site 246200003551 cell division protein FtsZ; Validated; Region: PRK09330 246200003552 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 246200003553 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 246200003554 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 246200003555 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 246200003556 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 246200003557 Walker A/P-loop; other site 246200003558 ATP binding site [chemical binding]; other site 246200003559 Q-loop/lid; other site 246200003560 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 246200003561 ABC transporter signature motif; other site 246200003562 Walker B; other site 246200003563 D-loop; other site 246200003564 H-loop/switch region; other site 246200003565 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 246200003566 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 246200003567 Cl- selectivity filter; other site 246200003568 Cl- binding residues [ion binding]; other site 246200003569 pore gating glutamate residue; other site 246200003570 dimer interface [polypeptide binding]; other site 246200003571 Uncharacterized conserved protein [Function unknown]; Region: COG5476 246200003572 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 246200003573 MlrC C-terminus; Region: MlrC_C; pfam07171 246200003574 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_16; cd08502 246200003575 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 246200003576 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200003577 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 246200003578 dimer interface [polypeptide binding]; other site 246200003579 conserved gate region; other site 246200003580 putative PBP binding loops; other site 246200003581 ABC-ATPase subunit interface; other site 246200003582 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 246200003583 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 246200003584 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 246200003585 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 246200003586 Walker A/P-loop; other site 246200003587 ATP binding site [chemical binding]; other site 246200003588 Q-loop/lid; other site 246200003589 ABC transporter signature motif; other site 246200003590 Walker B; other site 246200003591 D-loop; other site 246200003592 H-loop/switch region; other site 246200003593 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200003594 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 246200003595 Walker A/P-loop; other site 246200003596 ATP binding site [chemical binding]; other site 246200003597 Q-loop/lid; other site 246200003598 ABC transporter signature motif; other site 246200003599 Walker B; other site 246200003600 D-loop; other site 246200003601 H-loop/switch region; other site 246200003602 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200003603 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 246200003604 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 246200003605 metal binding site [ion binding]; metal-binding site 246200003606 putative dimer interface [polypeptide binding]; other site 246200003607 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 246200003608 Peptidase family M20/M25/M40; Region: Peptidase_M20; pfam01546 246200003609 metal binding site [ion binding]; metal-binding site 246200003610 dimer interface [polypeptide binding]; other site 246200003611 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 246200003612 non-specific DNA binding site [nucleotide binding]; other site 246200003613 salt bridge; other site 246200003614 sequence-specific DNA binding site [nucleotide binding]; other site 246200003615 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 246200003616 Int/Topo IB signature motif; other site 246200003617 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 246200003618 Phage integrase family; Region: Phage_integrase; pfam00589 246200003619 DNA binding site [nucleotide binding] 246200003620 Int/Topo IB signature motif; other site 246200003621 active site 246200003622 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 246200003623 catalytic residues [active] 246200003624 catalytic nucleophile [active] 246200003625 Recombinase; Region: Recombinase; pfam07508 246200003626 Domain of unknown function (DUF932); Region: DUF932; cl12129 246200003627 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200003628 AAA-like domain; Region: AAA_10; pfam12846 246200003629 Walker A motif; other site 246200003630 ATP binding site [chemical binding]; other site 246200003631 Walker B motif; other site 246200003632 Protein of unknown function (DUF3768); Region: DUF3768; pfam12599 246200003633 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; cl14780 246200003634 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 246200003635 non-specific DNA binding site [nucleotide binding]; other site 246200003636 salt bridge; other site 246200003637 sequence-specific DNA binding site [nucleotide binding]; other site 246200003638 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200003639 AAA-like domain; Region: AAA_10; pfam12846 246200003640 Walker A motif; other site 246200003641 ATP binding site [chemical binding]; other site 246200003642 Walker B motif; other site 246200003643 Replication-relaxation; Region: Replic_Relax; pfam13814 246200003644 H-NS histone family; Region: Histone_HNS; pfam00816 246200003645 Domain in histone-like proteins of HNS family; Region: HNS; cl09251 246200003646 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 246200003647 homodimer interface [polypeptide binding]; other site 246200003648 putative active site [active] 246200003649 catalytic site [active] 246200003650 CRISPR-associated helicase Cas3 [Defense mechanisms]; Region: COG1203 246200003651 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200003652 ATP binding site [chemical binding]; other site 246200003653 putative Mg++ binding site [ion binding]; other site 246200003654 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 246200003655 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200003656 Predicted ATPase [General function prediction only]; Region: COG5293 246200003657 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 246200003658 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200003659 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 246200003660 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; cl12011 246200003661 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 246200003662 cobyric acid synthase; Provisional; Region: PRK00784 246200003663 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200003664 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200003665 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 246200003666 catalytic triad [active] 246200003667 elongation factor P; Validated; Region: PRK00529 246200003668 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 246200003669 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 246200003670 RNA binding site [nucleotide binding]; other site 246200003671 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 246200003672 RNA binding site [nucleotide binding]; other site 246200003673 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 246200003674 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 246200003675 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 246200003676 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200003677 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 246200003678 Probable Catalytic site; other site 246200003679 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 246200003680 mce related protein; Region: MCE; cl15431 246200003681 mce related protein; Region: MCE; cl15431 246200003682 Protein of unknown function (DUF330); Region: DUF330; cl01135 246200003683 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 246200003684 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 246200003685 ATP binding site [chemical binding]; other site 246200003686 Mg2+ binding site [ion binding]; other site 246200003687 G-X-G motif; other site 246200003688 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 246200003689 anchoring element; other site 246200003690 dimer interface [polypeptide binding]; other site 246200003691 ATP binding site [chemical binding]; other site 246200003692 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 246200003693 active site 246200003694 metal binding site [ion binding]; metal-binding site 246200003695 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 246200003696 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 246200003697 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 246200003698 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 246200003699 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 246200003700 putative C-terminal domain interface [polypeptide binding]; other site 246200003701 putative GSH binding site (G-site) [chemical binding]; other site 246200003702 putative dimer interface [polypeptide binding]; other site 246200003703 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 246200003704 putative N-terminal domain interface [polypeptide binding]; other site 246200003705 putative dimer interface [polypeptide binding]; other site 246200003706 putative substrate binding pocket (H-site) [chemical binding]; other site 246200003707 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 246200003708 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200003709 Conserved hypothetical protein (DUF2461); Region: DUF2461; cl02374 246200003710 multidrug efflux protein; Reviewed; Region: PRK01766 246200003711 MatE; Region: MatE; cl10513 246200003712 MatE; Region: MatE; cl10513 246200003713 Transcriptional regulators [Transcription]; Region: MarR; COG1846 246200003714 Helix-turn-helix domains; Region: HTH; cl00088 246200003715 EamA-like transporter family; Region: EamA; cl01037 246200003716 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 246200003717 EamA-like transporter family; Region: EamA; cl01037 246200003718 aspartate aminotransferase; Provisional; Region: PRK05764 246200003719 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 246200003720 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200003721 homodimer interface [polypeptide binding]; other site 246200003722 catalytic residue [active] 246200003723 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 246200003724 non-specific DNA binding site [nucleotide binding]; other site 246200003725 salt bridge; other site 246200003726 sequence-specific DNA binding site [nucleotide binding]; other site 246200003727 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 246200003728 Helix-turn-helix domains; Region: HTH; cl00088 246200003729 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 246200003730 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 246200003731 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 246200003732 dimer interface [polypeptide binding]; other site 246200003733 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200003734 active site 246200003735 metal binding site [ion binding]; metal-binding site 246200003736 glutathione binding site [chemical binding]; other site 246200003737 Protein of unknown function (DUF560); Region: DUF560; pfam04575 246200003738 Thymidylate synthase complementing protein; Region: Thy1; cl03630 246200003739 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 246200003740 DNA-binding site [nucleotide binding]; DNA binding site 246200003741 RNA-binding motif; other site 246200003742 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 246200003743 ArsC family; Region: ArsC; pfam03960 246200003744 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 246200003745 Protein of unknown function (DUF692); Region: DUF692; cl01263 246200003746 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 246200003747 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 246200003748 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 246200003749 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 246200003750 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 246200003751 active site 246200003752 dimer interface [polypeptide binding]; other site 246200003753 motif 1; other site 246200003754 motif 2; other site 246200003755 motif 3; other site 246200003756 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 246200003757 anticodon binding site; other site 246200003758 MAPEG family; Region: MAPEG; cl09190 246200003759 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 246200003760 dimerization interface [polypeptide binding]; other site 246200003761 putative DNA binding site [nucleotide binding]; other site 246200003762 putative Zn2+ binding site [ion binding]; other site 246200003763 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 246200003764 hydrophobic ligand binding site; other site 246200003765 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200003766 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200003767 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_10; cd07251 246200003768 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200003769 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 246200003770 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 246200003771 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 246200003772 PHB de-polymerase C-terminus; Region: PHB_depo_C; cl14907 246200003773 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 246200003774 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 246200003775 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 246200003776 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 246200003777 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 246200003778 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 246200003779 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200003780 catalytic residue [active] 246200003781 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 246200003782 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 246200003783 active site 246200003784 catalytic tetrad [active] 246200003785 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200003786 Helix-turn-helix domains; Region: HTH; cl00088 246200003787 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 246200003788 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 246200003789 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 246200003790 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 246200003791 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 246200003792 catalytic triad [active] 246200003793 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 246200003794 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 246200003795 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200003796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200003797 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 246200003798 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 246200003799 dimer interface [polypeptide binding]; other site 246200003800 conserved gate region; other site 246200003801 putative PBP binding loops; other site 246200003802 ABC-ATPase subunit interface; other site 246200003803 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 246200003804 dimer interface [polypeptide binding]; other site 246200003805 conserved gate region; other site 246200003806 putative PBP binding loops; other site 246200003807 ABC-ATPase subunit interface; other site 246200003808 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 246200003809 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 246200003810 substrate binding pocket [chemical binding]; other site 246200003811 membrane-bound complex binding site; other site 246200003812 hinge residues; other site 246200003813 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 246200003814 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 246200003815 Walker A/P-loop; other site 246200003816 ATP binding site [chemical binding]; other site 246200003817 Q-loop/lid; other site 246200003818 ABC transporter signature motif; other site 246200003819 Walker B; other site 246200003820 D-loop; other site 246200003821 H-loop/switch region; other site 246200003822 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 246200003823 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 246200003824 putative metal binding site [ion binding]; other site 246200003825 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 246200003826 putative metal binding site [ion binding]; other site 246200003827 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 246200003828 active site 246200003829 dimer interface [polypeptide binding]; other site 246200003830 CTP synthetase; Validated; Region: pyrG; PRK05380 246200003831 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 246200003832 Catalytic site [active] 246200003833 active site 246200003834 UTP binding site [chemical binding]; other site 246200003835 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 246200003836 active site 246200003837 putative oxyanion hole; other site 246200003838 catalytic triad [active] 246200003839 Preprotein translocase SecG subunit; Region: SecG; cl09123 246200003840 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 246200003841 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 246200003842 NHLP leader peptide domain; Region: TOMM_pelo; cl15464 246200003843 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 246200003844 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 246200003845 nitrile hydratase, beta subunit; Region: nitrile_beta; cl03486 246200003846 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 246200003847 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 246200003848 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 246200003849 GDP-binding site [chemical binding]; other site 246200003850 ACT binding site; other site 246200003851 IMP binding site; other site 246200003852 Thiamine pyrophosphokinase; Region: TPK; cd07995 246200003853 active site 246200003854 thiamine binding site [chemical binding]; other site 246200003855 dimerization interface [polypeptide binding]; other site 246200003856 EamA-like transporter family; Region: EamA; cl01037 246200003857 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 246200003858 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 246200003859 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 246200003860 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 246200003861 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200003862 C-terminal domain interface [polypeptide binding]; other site 246200003863 GSH binding site (G-site) [chemical binding]; other site 246200003864 dimer interface [polypeptide binding]; other site 246200003865 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 246200003866 dimer interface [polypeptide binding]; other site 246200003867 N-terminal domain interface [polypeptide binding]; other site 246200003868 substrate binding pocket (H-site) [chemical binding]; other site 246200003869 Helix-turn-helix domains; Region: HTH; cl00088 246200003870 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 246200003871 tetramer (dimer of dimers) interface [polypeptide binding]; other site 246200003872 active site 246200003873 dimer interface [polypeptide binding]; other site 246200003874 glutathione reductase; Validated; Region: PRK06116 246200003875 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200003876 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 246200003877 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 246200003878 HflK protein; Region: hflK; TIGR01933 246200003879 HflC protein; Region: hflC; TIGR01932 246200003880 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 246200003881 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; cl01275 246200003882 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 246200003883 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 246200003884 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 246200003885 protein binding site [polypeptide binding]; other site 246200003886 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 246200003887 protein binding site [polypeptide binding]; other site 246200003888 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 246200003889 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 246200003890 ligand binding site [chemical binding]; other site 246200003891 flexible hinge region; other site 246200003892 Helix-turn-helix domains; Region: HTH; cl00088 246200003893 Intracellular septation protein A; Region: IspA; cl01098 246200003894 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 246200003895 EamA-like transporter family; Region: EamA; cl01037 246200003896 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 246200003897 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 246200003898 P loop; other site 246200003899 GTP binding site [chemical binding]; other site 246200003900 YhhN-like protein; Region: YhhN; cl01505 246200003901 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 246200003902 Di-iron ligands [ion binding]; other site 246200003903 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200003904 GST_N family, unknown subfamily 2; 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_2; cd03047 246200003905 putative C-terminal domain interface [polypeptide binding]; other site 246200003906 putative GSH binding site (G-site) [chemical binding]; other site 246200003907 putative dimer interface [polypeptide binding]; other site 246200003908 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 246200003909 putative N-terminal domain interface [polypeptide binding]; other site 246200003910 putative dimer interface [polypeptide binding]; other site 246200003911 putative substrate binding pocket (H-site) [chemical binding]; other site 246200003912 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 246200003913 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 246200003914 generic binding surface I; other site 246200003915 generic binding surface II; other site 246200003916 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 246200003917 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 246200003918 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 246200003919 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 246200003920 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 246200003921 PAS domain S-box; Region: sensory_box; TIGR00229 246200003922 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 246200003923 putative active site [active] 246200003924 heme pocket [chemical binding]; other site 246200003925 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 246200003926 DNA binding residues [nucleotide binding] 246200003927 dimerization interface [polypeptide binding]; other site 246200003928 Family description; Region: VCBS; pfam13517 246200003929 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 246200003930 catalytic loop [active] 246200003931 iron binding site [ion binding]; other site 246200003932 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 246200003933 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 246200003934 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 246200003935 homodimer interface [polypeptide binding]; other site 246200003936 substrate-cofactor binding pocket; other site 246200003937 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200003938 catalytic residue [active] 246200003939 Uncharacterized ACR, COG1469; Region: DUF198; cl00642 246200003940 Cation transport protein; Region: TrkH; cl10514 246200003941 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 246200003942 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 246200003943 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 246200003944 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 246200003945 motif 1; other site 246200003946 dimer interface [polypeptide binding]; other site 246200003947 active site 246200003948 motif 2; other site 246200003949 motif 3; other site 246200003950 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; cl12011 246200003951 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 246200003952 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 246200003953 pyruvate phosphate dikinase; Provisional; Region: PRK09279 246200003954 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 246200003955 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 246200003956 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 246200003957 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 246200003958 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 246200003959 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 246200003960 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 246200003961 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 246200003962 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 246200003963 dihydropteroate synthase; Region: DHPS; TIGR01496 246200003964 substrate binding pocket [chemical binding]; other site 246200003965 dimer interface [polypeptide binding]; other site 246200003966 inhibitor binding site; inhibition site 246200003967 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 246200003968 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 246200003969 active site 246200003970 substrate binding site [chemical binding]; other site 246200003971 metal binding site [ion binding]; metal-binding site 246200003972 EamA-like transporter family; Region: EamA; cl01037 246200003973 ketol-acid reductoisomerase; Provisional; Region: PRK05479 246200003974 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200003975 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 246200003976 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200003977 Helix-turn-helix domains; Region: HTH; cl00088 246200003978 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200003979 Helix-turn-helix domains; Region: HTH; cl00088 246200003980 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200003981 DNA-binding site [nucleotide binding]; DNA binding site 246200003982 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 246200003983 UTRA domain; Region: UTRA; cl01230 246200003984 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 246200003985 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200003986 catalytic residue [active] 246200003987 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 246200003988 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200003989 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200003990 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 246200003991 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 246200003992 Transcriptional regulators [Transcription]; Region: GntR; COG1802 246200003993 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200003994 DNA-binding site [nucleotide binding]; DNA binding site 246200003995 FCD domain; Region: FCD; cl11656 246200003996 GSPII_E N-terminal domain; Region: GSPII_E_N; pfam05157 246200003997 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 246200003998 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 246200003999 DXD motif; other site 246200004000 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 246200004001 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 246200004002 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 246200004003 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 246200004004 catalytic site [active] 246200004005 subunit interface [polypeptide binding]; other site 246200004006 GatB domain; Region: GatB_Yqey; cl11497 246200004007 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200004008 Integral membrane protein (DUF2244); Region: DUF2244; cl02302 246200004009 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 246200004010 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 246200004011 Subunit I/III interface [polypeptide binding]; other site 246200004012 D-pathway; other site 246200004013 Subunit I/VIIc interface [polypeptide binding]; other site 246200004014 Subunit I/IV interface [polypeptide binding]; other site 246200004015 Subunit I/II interface [polypeptide binding]; other site 246200004016 Low-spin heme (heme a) binding site [chemical binding]; other site 246200004017 Subunit I/VIIa interface [polypeptide binding]; other site 246200004018 Subunit I/VIa interface [polypeptide binding]; other site 246200004019 Dimer interface; other site 246200004020 Putative water exit pathway; other site 246200004021 Binuclear center (heme a3/CuB) [ion binding]; other site 246200004022 K-pathway; other site 246200004023 Subunit I/Vb interface [polypeptide binding]; other site 246200004024 Putative proton exit pathway; other site 246200004025 Subunit I/VIb interface; other site 246200004026 Subunit I/VIc interface [polypeptide binding]; other site 246200004027 Electron transfer pathway; other site 246200004028 Subunit I/VIIIb interface [polypeptide binding]; other site 246200004029 Subunit I/VIIb interface [polypeptide binding]; other site 246200004030 Helix-turn-helix domains; Region: HTH; cl00088 246200004031 hypothetical protein; Provisional; Region: PRK07877 246200004032 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 246200004033 HIT family signature motif; other site 246200004034 catalytic residue [active] 246200004035 Cation efflux family; Region: Cation_efflux; cl00316 246200004036 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 246200004037 DNA binding residues [nucleotide binding] 246200004038 dimerization interface [polypeptide binding]; other site 246200004039 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200004040 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 246200004041 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 246200004042 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 246200004043 catalytic residues [active] 246200004044 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 246200004045 Predicted transcriptional regulator [Transcription]; Region: COG1959 246200004046 Helix-turn-helix domains; Region: HTH; cl00088 246200004047 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 246200004048 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200004049 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 246200004050 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200004051 H+ Antiporter protein; Region: 2A0121; TIGR00900 246200004052 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 246200004053 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 246200004054 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 246200004055 lipoyl attachment site [posttranslational modification]; other site 246200004056 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200004057 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 246200004058 conserved cys residue [active] 246200004059 Uncharacterized conserved protein [Function unknown]; Region: COG3246 246200004060 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 246200004061 hypothetical protein; Provisional; Region: PRK07483 246200004062 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 246200004063 inhibitor-cofactor binding pocket; inhibition site 246200004064 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200004065 catalytic residue [active] 246200004066 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 246200004067 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 246200004068 active site 246200004069 HIGH motif; other site 246200004070 KMSKS motif; other site 246200004071 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 246200004072 tRNA binding surface [nucleotide binding]; other site 246200004073 anticodon binding site; other site 246200004074 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 246200004075 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200004076 putative substrate translocation pore; other site 246200004077 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 246200004078 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 246200004079 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 246200004080 RNA binding surface [nucleotide binding]; other site 246200004081 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 246200004082 active site 246200004083 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 246200004084 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 246200004085 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 246200004086 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 246200004087 DNA binding residues [nucleotide binding] 246200004088 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 246200004089 active site 246200004090 dimer interface [polypeptide binding]; other site 246200004091 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 246200004092 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl00408 246200004093 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 246200004094 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 246200004095 active site 246200004096 Zn binding site [ion binding]; other site 246200004097 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 246200004098 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 246200004099 SCP-2 sterol transfer family; Region: SCP2; cl01225 246200004100 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 246200004101 binding surface 246200004102 TPR motif; other site 246200004103 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200004104 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 246200004105 nucleotide binding region [chemical binding]; other site 246200004106 Superfamily II helicase [General function prediction only]; Region: COG1204 246200004107 ATP-binding site [chemical binding]; other site 246200004108 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 246200004109 RNA binding surface [nucleotide binding]; other site 246200004110 Ferredoxin [Energy production and conversion]; Region: COG1146 246200004111 4Fe-4S binding domain; Region: Fer4; cl02805 246200004112 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 246200004113 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 246200004114 Ion transport protein; Region: Ion_trans; pfam00520 246200004115 Ion channel; Region: Ion_trans_2; cl11596 246200004116 threonine synthase; Validated; Region: PRK06450 246200004117 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 246200004118 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 246200004119 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 246200004120 putative dimer interface [polypeptide binding]; other site 246200004121 active site pocket [active] 246200004122 putative cataytic base [active] 246200004123 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 246200004124 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 246200004125 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200004126 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200004127 Helix-turn-helix domains; Region: HTH; cl00088 246200004128 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 246200004129 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 246200004130 dimer interface [polypeptide binding]; other site 246200004131 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 246200004132 active site 246200004133 Fe binding site [ion binding]; other site 246200004134 Type IV pilus biogenesis; Region: Pilus_PilP; cl11837 246200004135 Protein of unknown function (DUF541); Region: SIMPL; cl01077 246200004136 H+ Antiporter protein; Region: 2A0121; TIGR00900 246200004137 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 246200004138 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 246200004139 homodimer interface [polypeptide binding]; other site 246200004140 substrate-cofactor binding pocket; other site 246200004141 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200004142 catalytic residue [active] 246200004143 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 246200004144 active site 246200004145 catalytic residue [active] 246200004146 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 246200004147 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 246200004148 active site 246200004149 catalytic tetrad [active] 246200004150 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200004151 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 246200004152 conserved cys residue [active] 246200004153 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200004154 Uncharacterized conserved protein [Function unknown]; Region: COG3246 246200004155 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 246200004156 bifunctional 3-hydroxyacyl-CoA dehydrogenase/thioesterase; Validated; Region: PRK07531 246200004157 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; cl12011 246200004158 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200004159 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 246200004160 active site 246200004161 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 246200004162 classical (c) SDRs; Region: SDR_c; cd05233 246200004163 NAD(P) binding site [chemical binding]; other site 246200004164 active site 246200004165 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 246200004166 salt bridge; other site 246200004167 non-specific DNA binding site [nucleotide binding]; other site 246200004168 sequence-specific DNA binding site [nucleotide binding]; other site 246200004169 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 246200004170 Fatty acid desaturase; Region: FA_desaturase; pfam00487 246200004171 putative di-iron ligands [ion binding]; other site 246200004172 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 246200004173 DEAD-like helicases superfamily; Region: DEXDc; smart00487 246200004174 ATP binding site [chemical binding]; other site 246200004175 Mg++ binding site [ion binding]; other site 246200004176 motif III; other site 246200004177 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 246200004178 nucleotide binding region [chemical binding]; other site 246200004179 ATP-binding site [chemical binding]; other site 246200004180 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 246200004181 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 246200004182 classical (c) SDRs; Region: SDR_c; cd05233 246200004183 NAD(P) binding site [chemical binding]; other site 246200004184 active site 246200004185 Putative cyclase; Region: Cyclase; cl00814 246200004186 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 246200004187 DUF35 OB-fold domain; Region: DUF35; pfam01796 246200004188 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200004189 NAD(P) binding site [chemical binding]; other site 246200004190 active site 246200004191 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 246200004192 active site 246200004193 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 246200004194 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200004195 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 246200004196 inter-subunit interface; other site 246200004197 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 246200004198 Rieske non-heme iron oxygenase (RO) family, Anthranilate 1,2-dioxygenase (AntDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_AntDO; cd03538 246200004199 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 246200004200 putative alpha subunit interface [polypeptide binding]; other site 246200004201 putative active site [active] 246200004202 putative substrate binding site [chemical binding]; other site 246200004203 Fe binding site [ion binding]; other site 246200004204 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 246200004205 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 246200004206 FMN-binding pocket [chemical binding]; other site 246200004207 flavin binding motif; other site 246200004208 phosphate binding motif [ion binding]; other site 246200004209 beta-alpha-beta structure motif; other site 246200004210 NAD binding pocket [chemical binding]; other site 246200004211 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 246200004212 catalytic loop [active] 246200004213 iron binding site [ion binding]; other site 246200004214 Helix-turn-helix domains; Region: HTH; cl00088 246200004215 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200004216 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200004217 DctM-like transporters; Region: DctM; pfam06808 246200004218 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200004219 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 246200004220 active site 246200004221 Transcriptional regulators [Transcription]; Region: MarR; COG1846 246200004222 Helix-turn-helix domains; Region: HTH; cl00088 246200004223 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 246200004224 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 246200004225 dimer interface [polypeptide binding]; other site 246200004226 PYR/PP interface [polypeptide binding]; other site 246200004227 TPP binding site [chemical binding]; other site 246200004228 substrate binding site [chemical binding]; other site 246200004229 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 246200004230 TPP-binding site; other site 246200004231 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 246200004232 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 246200004233 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200004234 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 246200004235 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 246200004236 ligand binding site [chemical binding]; other site 246200004237 DctM-like transporters; Region: DctM; pfam06808 246200004238 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200004239 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200004240 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200004241 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200004242 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200004243 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 246200004244 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08269 246200004245 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; cl12011 246200004246 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200004247 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 246200004248 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 246200004249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200004250 homodimer interface [polypeptide binding]; other site 246200004251 catalytic residue [active] 246200004252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200004253 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 246200004254 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 246200004255 tetramer interface [polypeptide binding]; other site 246200004256 active site 246200004257 Mg2+/Mn2+ binding site [ion binding]; other site 246200004258 Isochorismatase family; Region: Isochorismatase; pfam00857 246200004259 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 246200004260 catalytic triad [active] 246200004261 conserved cis-peptide bond; other site 246200004262 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 246200004263 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 246200004264 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 246200004265 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 246200004266 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 246200004267 active site 1 [active] 246200004268 dimer interface [polypeptide binding]; other site 246200004269 hexamer interface [polypeptide binding]; other site 246200004270 active site 2 [active] 246200004271 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 246200004272 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 246200004273 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200004274 DNA-binding site [nucleotide binding]; DNA binding site 246200004275 UTRA domain; Region: UTRA; cl01230 246200004276 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 246200004277 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 246200004278 substrate binding site [chemical binding]; other site 246200004279 ligand binding site [chemical binding]; other site 246200004280 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 246200004281 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 246200004282 substrate binding site [chemical binding]; other site 246200004283 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 246200004284 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 246200004285 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 246200004286 DNA binding residues [nucleotide binding] 246200004287 Transcriptional activator [Transcription]; Region: ChrR; COG3806 246200004288 Cupin domain; Region: Cupin_2; cl09118 246200004289 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200004290 short chain dehydrogenase; Provisional; Region: PRK06101 246200004291 NAD(P) binding site [chemical binding]; other site 246200004292 active site 246200004293 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 246200004294 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 246200004295 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200004296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200004297 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 246200004298 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 246200004299 S-adenosylmethionine binding site [chemical binding]; other site 246200004300 Na+/melibiose symporter and related transporters [Carbohydrate transport and metabolism]; Region: MelB; COG2211 246200004301 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 246200004302 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 246200004303 DNA binding residues [nucleotide binding] 246200004304 dimerization interface [polypeptide binding]; other site 246200004305 indole acetimide hydrolase; Validated; Region: PRK07488 246200004306 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 246200004307 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 246200004308 Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides; Region: PBP1_NHase; cd06358 246200004309 putative ligand binding site [chemical binding]; other site 246200004310 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 246200004311 TM-ABC transporter signature motif; other site 246200004312 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 246200004313 TM-ABC transporter signature motif; other site 246200004314 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200004315 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 246200004316 Walker A/P-loop; other site 246200004317 ATP binding site [chemical binding]; other site 246200004318 Q-loop/lid; other site 246200004319 ABC transporter signature motif; other site 246200004320 Walker B; other site 246200004321 D-loop; other site 246200004322 H-loop/switch region; other site 246200004323 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200004324 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 246200004325 Walker A/P-loop; other site 246200004326 ATP binding site [chemical binding]; other site 246200004327 Q-loop/lid; other site 246200004328 ABC transporter signature motif; other site 246200004329 Walker B; other site 246200004330 D-loop; other site 246200004331 H-loop/switch region; other site 246200004332 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 246200004333 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 246200004334 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 246200004335 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 246200004336 Walker A/P-loop; other site 246200004337 ATP binding site [chemical binding]; other site 246200004338 Q-loop/lid; other site 246200004339 ABC transporter signature motif; other site 246200004340 Walker B; other site 246200004341 D-loop; other site 246200004342 H-loop/switch region; other site 246200004343 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 246200004344 FtsX-like permease family; Region: FtsX; pfam02687 246200004345 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 246200004346 FtsX-like permease family; Region: FtsX; pfam02687 246200004347 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 246200004348 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 246200004349 Fumarase C-terminus; Region: Fumerase_C; cl00795 246200004350 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200004351 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 246200004352 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 246200004353 FeS/SAM binding site; other site 246200004354 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; cl14869 246200004355 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 246200004356 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 246200004357 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200004358 PqqA family; Region: PqqA; cl15372 246200004359 PAS fold; Region: PAS_7; pfam12860 246200004360 PAS fold; Region: PAS_7; pfam12860 246200004361 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 246200004362 dimer interface [polypeptide binding]; other site 246200004363 phosphorylation site [posttranslational modification] 246200004364 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 246200004365 ATP binding site [chemical binding]; other site 246200004366 Mg2+ binding site [ion binding]; other site 246200004367 G-X-G motif; other site 246200004368 Response regulator receiver domain; Region: Response_reg; pfam00072 246200004369 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 246200004370 active site 246200004371 phosphorylation site [posttranslational modification] 246200004372 intermolecular recognition site; other site 246200004373 dimerization interface [polypeptide binding]; other site 246200004374 Uncharacterized conserved protein [Function unknown]; Region: COG3287 246200004375 FIST N domain; Region: FIST; cl10701 246200004376 FIST C domain; Region: FIST_C; pfam10442 246200004377 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200004378 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 246200004379 active site 246200004380 phosphorylation site [posttranslational modification] 246200004381 intermolecular recognition site; other site 246200004382 dimerization interface [polypeptide binding]; other site 246200004383 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 246200004384 DNA binding residues [nucleotide binding] 246200004385 dimerization interface [polypeptide binding]; other site 246200004386 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 246200004387 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 246200004388 dimer interface [polypeptide binding]; other site 246200004389 Trp docking motif [polypeptide binding]; other site 246200004390 active site 246200004391 Cytochrome c; Region: Cytochrom_C; cl11414 246200004392 ABC-2 type transporter; Region: ABC2_membrane; cl11417 246200004393 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 246200004394 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200004395 Walker A/P-loop; other site 246200004396 ATP binding site [chemical binding]; other site 246200004397 Q-loop/lid; other site 246200004398 ABC transporter signature motif; other site 246200004399 Walker B; other site 246200004400 D-loop; other site 246200004401 H-loop/switch region; other site 246200004402 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 246200004403 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 246200004404 structural tetrad; other site 246200004405 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 246200004406 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 246200004407 ligand binding site [chemical binding]; other site 246200004408 Cytochrome c; Region: Cytochrom_C; cl11414 246200004409 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 246200004410 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 246200004411 substrate binding pocket [chemical binding]; other site 246200004412 membrane-bound complex binding site; other site 246200004413 hinge residues; other site 246200004414 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 246200004415 putative hydrophobic ligand binding site [chemical binding]; other site 246200004416 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 246200004417 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 246200004418 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 246200004419 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 246200004420 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 246200004421 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 246200004422 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 246200004423 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 246200004424 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 246200004425 FMN-binding domain; Region: FMN_bind; cl01081 246200004426 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 246200004427 4Fe-4S binding domain; Region: Fer4_5; pfam12801 246200004428 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 246200004429 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200004430 Predicted secreted protein [Function unknown]; Region: COG5501; cl02313 246200004431 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 246200004432 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 246200004433 Protein export membrane protein; Region: SecD_SecF; cl14618 246200004434 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 246200004435 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 246200004436 putative metal binding residues [ion binding]; other site 246200004437 signature motif; other site 246200004438 dimer interface [polypeptide binding]; other site 246200004439 polyP binding site; other site 246200004440 active site 246200004441 substrate binding site [chemical binding]; other site 246200004442 acceptor-phosphate pocket; other site 246200004443 MviN-like protein; Region: MVIN; pfam03023 246200004444 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200004445 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 246200004446 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 246200004447 putative ADP-binding pocket [chemical binding]; other site 246200004448 Bacterial sugar transferase; Region: Bac_transf; cl00939 246200004449 outer membrane N-deacetylase; Provisional; Region: hmsF; PRK14581 246200004450 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 246200004451 putative active site [active] 246200004452 putative metal binding site [ion binding]; other site 246200004453 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 246200004454 colanic acid biosynthesis glycosyltransferase WcaL; Provisional; Region: PRK15427 246200004455 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 246200004456 putative ADP-binding pocket [chemical binding]; other site 246200004457 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 246200004458 Chain length determinant protein; Region: Wzz; cl01623 246200004459 O-Antigen ligase; Region: Wzy_C; cl04850 246200004460 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 246200004461 DXD motif; other site 246200004462 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200004463 Helix-turn-helix domains; Region: HTH; cl00088 246200004464 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 246200004465 dimerization interface [polypeptide binding]; other site 246200004466 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 246200004467 active site 246200004468 dimer interface [polypeptide binding]; other site 246200004469 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 246200004470 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 246200004471 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200004472 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 246200004473 dimer interface [polypeptide binding]; other site 246200004474 conserved gate region; other site 246200004475 putative PBP binding loops; other site 246200004476 ABC-ATPase subunit interface; other site 246200004477 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 246200004478 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 246200004479 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 246200004480 dimer interface [polypeptide binding]; other site 246200004481 conserved gate region; other site 246200004482 ABC-ATPase subunit interface; other site 246200004483 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 246200004484 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 246200004485 Walker A/P-loop; other site 246200004486 ATP binding site [chemical binding]; other site 246200004487 Q-loop/lid; other site 246200004488 ABC transporter signature motif; other site 246200004489 Walker B; other site 246200004490 D-loop; other site 246200004491 H-loop/switch region; other site 246200004492 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200004493 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 246200004494 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 246200004495 Walker A/P-loop; other site 246200004496 ATP binding site [chemical binding]; other site 246200004497 Q-loop/lid; other site 246200004498 ABC transporter signature motif; other site 246200004499 Walker B; other site 246200004500 D-loop; other site 246200004501 H-loop/switch region; other site 246200004502 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 246200004503 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 246200004504 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 246200004505 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 246200004506 Walker A/P-loop; other site 246200004507 ATP binding site [chemical binding]; other site 246200004508 Q-loop/lid; other site 246200004509 ABC transporter signature motif; other site 246200004510 Walker B; other site 246200004511 D-loop; other site 246200004512 H-loop/switch region; other site 246200004513 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 246200004514 dimer interface [polypeptide binding]; other site 246200004515 conserved gate region; other site 246200004516 putative PBP binding loops; other site 246200004517 ABC-ATPase subunit interface; other site 246200004518 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 246200004519 dimer interface [polypeptide binding]; other site 246200004520 conserved gate region; other site 246200004521 ABC-ATPase subunit interface; other site 246200004522 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 246200004523 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_3; cd06336 246200004524 putative ligand binding site [chemical binding]; other site 246200004525 Transcriptional regulators [Transcription]; Region: FadR; COG2186 246200004526 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200004527 DNA-binding site [nucleotide binding]; DNA binding site 246200004528 FCD domain; Region: FCD; cl11656 246200004529 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 246200004530 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 246200004531 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 246200004532 putative dimer interface [polypeptide binding]; other site 246200004533 [2Fe-2S] cluster binding site [ion binding]; other site 246200004534 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 246200004535 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 246200004536 SLBB domain; Region: SLBB; pfam10531 246200004537 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 246200004538 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 246200004539 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 246200004540 catalytic loop [active] 246200004541 iron binding site [ion binding]; other site 246200004542 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 246200004543 4Fe-4S binding domain; Region: Fer4; cl02805 246200004544 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 246200004545 [4Fe-4S] binding site [ion binding]; other site 246200004546 molybdopterin cofactor binding site; other site 246200004547 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_CT_Formate-Dh_H; cd02790 246200004548 molybdopterin cofactor binding site; other site 246200004549 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 246200004550 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 246200004551 Potassium binding sites [ion binding]; other site 246200004552 Cesium cation binding sites [ion binding]; other site 246200004553 Chorismate mutase type II; Region: CM_2; cl00693 246200004554 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 246200004555 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 246200004556 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 246200004557 homodimer interface [polypeptide binding]; other site 246200004558 NADP binding site [chemical binding]; other site 246200004559 substrate binding site [chemical binding]; other site 246200004560 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 246200004561 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 246200004562 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 246200004563 homodimer interface [polypeptide binding]; other site 246200004564 NADP binding site [chemical binding]; other site 246200004565 substrate binding site [chemical binding]; other site 246200004566 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200004567 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200004568 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 246200004569 heme-binding site [chemical binding]; other site 246200004570 MOFRL family; Region: MOFRL; cl01013 246200004571 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 246200004572 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200004573 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 246200004574 active site 246200004575 phosphorylation site [posttranslational modification] 246200004576 intermolecular recognition site; other site 246200004577 dimerization interface [polypeptide binding]; other site 246200004578 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 246200004579 DNA binding residues [nucleotide binding] 246200004580 dimerization interface [polypeptide binding]; other site 246200004581 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 246200004582 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 246200004583 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200004584 catalytic residue [active] 246200004585 malate--CoA ligase subunit beta; Provisional; Region: PRK14046 246200004586 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 246200004587 CoA-ligase; Region: Ligase_CoA; pfam00549 246200004588 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 246200004589 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200004590 CoA-ligase; Region: Ligase_CoA; pfam00549 246200004591 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 246200004592 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200004593 Phosphoenolpyruvate carboxylase [Carbohydrate transport and metabolism; Energy production and conversion]; Region: COG1892; cl14656 246200004594 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 246200004595 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 246200004596 dimer interface [polypeptide binding]; other site 246200004597 glycine-pyridoxal phosphate binding site [chemical binding]; other site 246200004598 active site 246200004599 folate binding site [chemical binding]; other site 246200004600 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 246200004601 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 246200004602 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 246200004603 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 246200004604 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 246200004605 active site 246200004606 FMN binding site [chemical binding]; other site 246200004607 substrate binding site [chemical binding]; other site 246200004608 3Fe-4S cluster binding site [ion binding]; other site 246200004609 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; cd00504 246200004610 domain_subunit interface; other site 246200004611 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 246200004612 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 246200004613 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 246200004614 putative active site [active] 246200004615 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 246200004616 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200004617 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200004618 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 246200004619 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 246200004620 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 246200004621 FMN-binding pocket [chemical binding]; other site 246200004622 flavin binding motif; other site 246200004623 phosphate binding motif [ion binding]; other site 246200004624 beta-alpha-beta structure motif; other site 246200004625 NAD binding pocket [chemical binding]; other site 246200004626 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 246200004627 catalytic loop [active] 246200004628 iron binding site [ion binding]; other site 246200004629 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 246200004630 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 246200004631 non-specific DNA binding site [nucleotide binding]; other site 246200004632 salt bridge; other site 246200004633 sequence-specific DNA binding site [nucleotide binding]; other site 246200004634 Cupin domain; Region: Cupin_2; cl09118 246200004635 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200004636 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 246200004637 conserved cys residue [active] 246200004638 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200004639 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 246200004640 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 246200004641 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200004642 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 246200004643 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200004644 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200004645 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 246200004646 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 246200004647 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 246200004648 [2Fe-2S] cluster binding site [ion binding]; other site 246200004649 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 246200004650 hydrophobic ligand binding site; other site 246200004651 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 246200004652 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 246200004653 putative active site [active] 246200004654 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200004655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200004656 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200004657 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200004658 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 246200004659 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 246200004660 putative NAD(P) binding site [chemical binding]; other site 246200004661 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 246200004662 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 246200004663 metal binding site [ion binding]; metal-binding site 246200004664 substrate binding pocket [chemical binding]; other site 246200004665 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 246200004666 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 246200004667 active site pocket [active] 246200004668 Cupin domain; Region: Cupin_2; cl09118 246200004669 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 246200004670 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 246200004671 inhibitor-cofactor binding pocket; inhibition site 246200004672 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200004673 catalytic residue [active] 246200004674 Uncharacterized conserved protein [Function unknown]; Region: COG3777 246200004675 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 246200004676 active site 2 [active] 246200004677 active site 1 [active] 246200004678 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 246200004679 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 246200004680 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 246200004681 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200004682 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 246200004683 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 246200004684 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 246200004685 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200004686 Helix-turn-helix domains; Region: HTH; cl00088 246200004687 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 246200004688 dimerization interface [polypeptide binding]; other site 246200004689 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 246200004690 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 246200004691 active site 246200004692 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 246200004693 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 246200004694 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 246200004695 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 246200004696 dimer interface [polypeptide binding]; other site 246200004697 conserved gate region; other site 246200004698 putative PBP binding loops; other site 246200004699 ABC-ATPase subunit interface; other site 246200004700 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 246200004701 dimer interface [polypeptide binding]; other site 246200004702 conserved gate region; other site 246200004703 putative PBP binding loops; other site 246200004704 ABC-ATPase subunit interface; other site 246200004705 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 246200004706 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200004707 Walker A/P-loop; other site 246200004708 ATP binding site [chemical binding]; other site 246200004709 Q-loop/lid; other site 246200004710 ABC transporter signature motif; other site 246200004711 Walker B; other site 246200004712 D-loop; other site 246200004713 H-loop/switch region; other site 246200004714 TOBE domain; Region: TOBE_2; cl01440 246200004715 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 246200004716 DNA binding residues [nucleotide binding] 246200004717 dimerization interface [polypeptide binding]; other site 246200004718 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 246200004719 DsrE/DsrF-like family; Region: DrsE; cl00672 246200004720 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 246200004721 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 246200004722 ligand binding site [chemical binding]; other site 246200004723 flexible hinge region; other site 246200004724 Helix-turn-helix domains; Region: HTH; cl00088 246200004725 LytTr DNA-binding domain; Region: LytTR; cl04498 246200004726 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 246200004727 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; cl14780 246200004728 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200004729 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 246200004730 TfoX N-terminal domain; Region: TfoX_N; cl01167 246200004731 Cytochrome P450; Region: p450; cl12078 246200004732 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 246200004733 dimerization interface [polypeptide binding]; other site 246200004734 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 246200004735 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 246200004736 ATP binding site [chemical binding]; other site 246200004737 Mg2+ binding site [ion binding]; other site 246200004738 G-X-G motif; other site 246200004739 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 246200004740 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 246200004741 active site 246200004742 phosphorylation site [posttranslational modification] 246200004743 intermolecular recognition site; other site 246200004744 dimerization interface [polypeptide binding]; other site 246200004745 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 246200004746 DNA binding site [nucleotide binding] 246200004747 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 246200004748 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 246200004749 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 246200004750 protein binding site [polypeptide binding]; other site 246200004751 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 246200004752 protein binding site [polypeptide binding]; other site 246200004753 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200004754 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; cl14780 246200004755 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 246200004756 Ligand binding site; other site 246200004757 metal-binding site 246200004758 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200004759 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200004760 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200004761 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 246200004762 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200004763 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 246200004764 BT1 family; Region: BT1; pfam03092 246200004765 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 246200004766 Domain of unknown function DUF21; Region: DUF21; pfam01595 246200004767 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 246200004768 Transporter associated domain; Region: CorC_HlyC; cl08393 246200004769 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 246200004770 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 246200004771 DNA binding site [nucleotide binding] 246200004772 Int/Topo IB signature motif; other site 246200004773 active site 246200004774 shikimate kinase; Reviewed; Region: aroK; PRK00131 246200004775 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 246200004776 ADP binding site [chemical binding]; other site 246200004777 magnesium binding site [ion binding]; other site 246200004778 putative shikimate binding site; other site 246200004779 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 246200004780 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 246200004781 active site 246200004782 dimer interface [polypeptide binding]; other site 246200004783 metal binding site [ion binding]; metal-binding site 246200004784 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 246200004785 active site 246200004786 putative substrate binding region [chemical binding]; other site 246200004787 FOG: CBS domain [General function prediction only]; Region: COG0517 246200004788 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_26; cd04639 246200004789 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 246200004790 dimer interface [polypeptide binding]; other site 246200004791 ssDNA binding site [nucleotide binding]; other site 246200004792 tetramer (dimer of dimers) interface [polypeptide binding]; other site 246200004793 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 246200004794 N-acetyl-D-glucosamine binding site [chemical binding]; other site 246200004795 catalytic residue [active] 246200004796 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200004797 NAD(P) binding site [chemical binding]; other site 246200004798 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200004799 Helix-turn-helix domains; Region: HTH; cl00088 246200004800 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 246200004801 dimerization interface [polypeptide binding]; other site 246200004802 substrate binding pocket [chemical binding]; other site 246200004803 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 246200004804 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 246200004805 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 246200004806 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 246200004807 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 246200004808 Walker A/P-loop; other site 246200004809 ATP binding site [chemical binding]; other site 246200004810 Q-loop/lid; other site 246200004811 ABC transporter signature motif; other site 246200004812 Walker B; other site 246200004813 D-loop; other site 246200004814 H-loop/switch region; other site 246200004815 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200004816 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 246200004817 Walker A/P-loop; other site 246200004818 ATP binding site [chemical binding]; other site 246200004819 Q-loop/lid; other site 246200004820 ABC transporter signature motif; other site 246200004821 Walker B; other site 246200004822 D-loop; other site 246200004823 H-loop/switch region; other site 246200004824 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200004825 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 246200004826 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 246200004827 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 246200004828 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200004829 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 246200004830 dimer interface [polypeptide binding]; other site 246200004831 conserved gate region; other site 246200004832 putative PBP binding loops; other site 246200004833 ABC-ATPase subunit interface; other site 246200004834 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200004835 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_17; cd08503 246200004836 putative dimethyl sulfoniopropionate demethylase; Reviewed; Region: dmdA; PRK12486 246200004837 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200004838 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 246200004839 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 246200004840 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 246200004841 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 246200004842 Walker A/P-loop; other site 246200004843 ATP binding site [chemical binding]; other site 246200004844 Q-loop/lid; other site 246200004845 ABC transporter signature motif; other site 246200004846 Walker B; other site 246200004847 D-loop; other site 246200004848 H-loop/switch region; other site 246200004849 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200004850 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 246200004851 Walker A/P-loop; other site 246200004852 ATP binding site [chemical binding]; other site 246200004853 Q-loop/lid; other site 246200004854 ABC transporter signature motif; other site 246200004855 Walker B; other site 246200004856 D-loop; other site 246200004857 H-loop/switch region; other site 246200004858 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200004859 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 246200004860 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 246200004861 conserved gate region; other site 246200004862 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 246200004863 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200004864 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 246200004865 dimer interface [polypeptide binding]; other site 246200004866 conserved gate region; other site 246200004867 putative PBP binding loops; other site 246200004868 ABC-ATPase subunit interface; other site 246200004869 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200004870 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_17; cd08503 246200004871 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 246200004872 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200004873 IPP transferase; Region: IPPT; cl00403 246200004874 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 246200004875 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 246200004876 putative nucleotide binding site [chemical binding]; other site 246200004877 uridine monophosphate binding site [chemical binding]; other site 246200004878 homohexameric interface [polypeptide binding]; other site 246200004879 ribosome recycling factor; Reviewed; Region: frr; PRK00083 246200004880 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 246200004881 hinge region; other site 246200004882 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 246200004883 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; cd00475 246200004884 catalytic residue [active] 246200004885 putative FPP diphosphate binding site; other site 246200004886 putative FPP binding hydrophobic cleft; other site 246200004887 dimer interface [polypeptide binding]; other site 246200004888 putative IPP diphosphate binding site; other site 246200004889 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 246200004890 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 246200004891 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 246200004892 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 246200004893 RIP metalloprotease RseP; Region: TIGR00054 246200004894 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 246200004895 active site 246200004896 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 246200004897 protein binding site [polypeptide binding]; other site 246200004898 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 246200004899 protein binding site [polypeptide binding]; other site 246200004900 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 246200004901 putative substrate binding region [chemical binding]; other site 246200004902 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 246200004903 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 246200004904 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 246200004905 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 246200004906 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 246200004907 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 246200004908 Surface antigen; Region: Bac_surface_Ag; cl03097 246200004909 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 246200004910 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 246200004911 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 246200004912 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 246200004913 active site 246200004914 Protein of unknown function (DUF1009); Region: DUF1009; cl09182 246200004915 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 246200004916 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 246200004917 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 246200004918 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 246200004919 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200004920 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 246200004921 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 246200004922 Ligand Binding Site [chemical binding]; other site 246200004923 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 246200004924 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 246200004925 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 246200004926 active site 246200004927 phosphorylation site [posttranslational modification] 246200004928 intermolecular recognition site; other site 246200004929 dimerization interface [polypeptide binding]; other site 246200004930 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 246200004931 DNA binding site [nucleotide binding] 246200004932 Ligase N family; Region: LIGANc; smart00532 246200004933 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 246200004934 nucleotide binding pocket [chemical binding]; other site 246200004935 K-X-D-G motif; other site 246200004936 catalytic site [active] 246200004937 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 246200004938 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 246200004939 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 246200004940 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 246200004941 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 246200004942 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 246200004943 ssDNA binding site; other site 246200004944 generic binding surface II; other site 246200004945 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 246200004946 ATP binding site [chemical binding]; other site 246200004947 putative Mg++ binding site [ion binding]; other site 246200004948 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 246200004949 nucleotide binding region [chemical binding]; other site 246200004950 ATP-binding site [chemical binding]; other site 246200004951 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 246200004952 trimerization site [polypeptide binding]; other site 246200004953 active site 246200004954 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 246200004955 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 246200004956 active site 246200004957 HIGH motif; other site 246200004958 nucleotide binding site [chemical binding]; other site 246200004959 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 246200004960 active site 246200004961 KMSKS motif; other site 246200004962 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 246200004963 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 246200004964 enoyl-CoA hydratase; Validated; Region: PRK08139 246200004965 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 246200004966 substrate binding site [chemical binding]; other site 246200004967 oxyanion hole (OAH) forming residues; other site 246200004968 trimer interface [polypeptide binding]; other site 246200004969 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 246200004970 CoenzymeA binding site [chemical binding]; other site 246200004971 subunit interaction site [polypeptide binding]; other site 246200004972 PHB binding site; other site 246200004973 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 246200004974 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 246200004975 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200004976 DNA-binding site [nucleotide binding]; DNA binding site 246200004977 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 246200004978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200004979 homodimer interface [polypeptide binding]; other site 246200004980 catalytic residue [active] 246200004981 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 246200004982 23S rRNA interface [nucleotide binding]; other site 246200004983 L3 interface [polypeptide binding]; other site 246200004984 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 246200004985 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200004986 Uncharacterized conserved protein [Function unknown]; Region: COG4938 246200004987 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 246200004988 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 246200004989 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 246200004990 substrate binding site [chemical binding]; other site 246200004991 ATP binding site [chemical binding]; other site 246200004992 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 246200004993 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 246200004994 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 246200004995 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 246200004996 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 246200004997 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 246200004998 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200004999 homodimer interface [polypeptide binding]; other site 246200005000 catalytic residue [active] 246200005001 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200005002 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 246200005003 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200005004 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 246200005005 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 246200005006 inhibitor site; inhibition site 246200005007 active site 246200005008 dimer interface [polypeptide binding]; other site 246200005009 catalytic residue [active] 246200005010 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 246200005011 CoA-transferase family III; Region: CoA_transf_3; pfam02515 246200005012 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 246200005013 CoA-transferase family III; Region: CoA_transf_3; pfam02515 246200005014 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200005015 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 246200005016 conserved cys residue [active] 246200005017 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 246200005018 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 246200005019 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 246200005020 Walker A/P-loop; other site 246200005021 ATP binding site [chemical binding]; other site 246200005022 Q-loop/lid; other site 246200005023 ABC transporter signature motif; other site 246200005024 Walker B; other site 246200005025 D-loop; other site 246200005026 H-loop/switch region; other site 246200005027 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 246200005028 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 246200005029 Walker A/P-loop; other site 246200005030 ATP binding site [chemical binding]; other site 246200005031 Q-loop/lid; other site 246200005032 ABC transporter signature motif; other site 246200005033 Walker B; other site 246200005034 D-loop; other site 246200005035 H-loop/switch region; other site 246200005036 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 246200005037 TM-ABC transporter signature motif; other site 246200005038 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 246200005039 TM-ABC transporter signature motif; other site 246200005040 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 246200005041 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 246200005042 putative ligand binding site [chemical binding]; other site 246200005043 UreD urease accessory protein; Region: UreD; cl00530 246200005044 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 246200005045 alpha-gamma subunit interface [polypeptide binding]; other site 246200005046 beta-gamma subunit interface [polypeptide binding]; other site 246200005047 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 246200005048 gamma-beta subunit interface [polypeptide binding]; other site 246200005049 alpha-beta subunit interface [polypeptide binding]; other site 246200005050 urease subunit alpha; Reviewed; Region: ureC; PRK13207 246200005051 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 246200005052 subunit interactions [polypeptide binding]; other site 246200005053 active site 246200005054 flap region; other site 246200005055 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 246200005056 dimer interface [polypeptide binding]; other site 246200005057 catalytic residues [active] 246200005058 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 246200005059 UreF; Region: UreF; pfam01730 246200005060 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200005061 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200005062 Switch II region; other site 246200005063 G4 box; other site 246200005064 G5 box; other site 246200005065 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 246200005066 DNA-binding interface [nucleotide binding]; DNA binding site 246200005067 DctM-like transporters; Region: DctM; pfam06808 246200005068 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200005069 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200005070 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200005071 Transcriptional regulators [Transcription]; Region: GntR; COG1802 246200005072 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200005073 DNA-binding site [nucleotide binding]; DNA binding site 246200005074 FCD domain; Region: FCD; cl11656 246200005075 mannonate dehydratase; Provisional; Region: PRK03906 246200005076 mannonate dehydratase; Region: uxuA; TIGR00695 246200005077 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 246200005078 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 246200005079 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 246200005080 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; cl12011 246200005081 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200005082 Helix-turn-helix domains; Region: HTH; cl00088 246200005083 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200005084 active site 246200005085 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200005086 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 246200005087 Homoserine O-succinyltransferase; Region: HTS; pfam04204 246200005088 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 246200005089 proposed active site lysine [active] 246200005090 conserved cys residue [active] 246200005091 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 246200005092 DHH family; Region: DHH; pfam01368 246200005093 DHHA1 domain; Region: DHHA1; pfam02272 246200005094 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 246200005095 putative active site [active] 246200005096 homoserine dehydrogenase; Provisional; Region: PRK06349 246200005097 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200005098 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 246200005099 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 246200005100 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200005101 Helix-turn-helix domains; Region: HTH; cl00088 246200005102 Pirin-related protein [General function prediction only]; Region: COG1741 246200005103 Cupin domain; Region: Cupin_2; cl09118 246200005104 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 246200005105 reductive dehalogenase; Region: RDH; TIGR02486 246200005106 TadE-like protein; Region: TadE; pfam07811 246200005107 TadE-like protein; Region: TadE; cl10688 246200005108 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 246200005109 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 246200005110 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 246200005111 NAD(P) binding site [chemical binding]; other site 246200005112 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200005113 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200005114 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 246200005115 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 246200005116 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200005117 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200005118 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 246200005119 DNA primase; Validated; Region: dnaG; PRK05667 246200005120 CHC2 zinc finger; Region: zf-CHC2; cl15369 246200005121 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 246200005122 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 246200005123 active site 246200005124 metal binding site [ion binding]; metal-binding site 246200005125 interdomain interaction site; other site 246200005126 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 246200005127 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 246200005128 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 246200005129 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 246200005130 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 246200005131 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 246200005132 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 246200005133 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 246200005134 DNA binding residues [nucleotide binding] 246200005135 Uncharacterised protein family UPF0047; Region: UPF0047; cl00439 246200005136 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 246200005137 ATP cone domain; Region: ATP-cone; pfam03477 246200005138 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 246200005139 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 246200005140 catalytic motif [active] 246200005141 Zn binding site [ion binding]; other site 246200005142 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 246200005143 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 246200005144 Vi polysaccharide export protein VexA; Provisional; Region: PRK15175 246200005145 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 246200005146 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 246200005147 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 246200005148 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 246200005149 Lumazine binding domain; Region: Lum_binding; pfam00677 246200005150 Lumazine binding domain; Region: Lum_binding; pfam00677 246200005151 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 246200005152 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 246200005153 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 246200005154 dimerization interface [polypeptide binding]; other site 246200005155 active site 246200005156 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 246200005157 homopentamer interface [polypeptide binding]; other site 246200005158 active site 246200005159 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 246200005160 putative RNA binding site [nucleotide binding]; other site 246200005161 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 246200005162 DNA binding residues [nucleotide binding] 246200005163 dimerization interface [polypeptide binding]; other site 246200005164 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 246200005165 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200005166 DctM-like transporters; Region: DctM; pfam06808 246200005167 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200005168 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200005169 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200005170 Cupin domain; Region: Cupin_2; cl09118 246200005171 Transcriptional activator [Transcription]; Region: ChrR; COG3806 246200005172 Cupin domain; Region: Cupin_2; cl09118 246200005173 Cupin domain; Region: Cupin_2; cl09118 246200005174 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 246200005175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200005176 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 246200005177 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 246200005178 homodimer interface [polypeptide binding]; other site 246200005179 active site 246200005180 FMN binding site [chemical binding]; other site 246200005181 substrate binding site [chemical binding]; other site 246200005182 4Fe-4S binding domain; Region: Fer4; cl02805 246200005183 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200005184 Helix-turn-helix domains; Region: HTH; cl00088 246200005185 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 246200005186 allantoate amidohydrolase; Reviewed; Region: PRK12893 246200005187 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 246200005188 active site 246200005189 metal binding site [ion binding]; metal-binding site 246200005190 dimer interface [polypeptide binding]; other site 246200005191 phenylhydantoinase; Validated; Region: PRK08323 246200005192 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 246200005193 tetramer interface [polypeptide binding]; other site 246200005194 active site 246200005195 Cupin domain; Region: Cupin_2; cl09118 246200005196 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 246200005197 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 246200005198 Walker A/P-loop; other site 246200005199 ATP binding site [chemical binding]; other site 246200005200 Q-loop/lid; other site 246200005201 ABC transporter signature motif; other site 246200005202 Walker B; other site 246200005203 D-loop; other site 246200005204 H-loop/switch region; other site 246200005205 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 246200005206 dimer interface [polypeptide binding]; other site 246200005207 conserved gate region; other site 246200005208 putative PBP binding loops; other site 246200005209 ABC-ATPase subunit interface; other site 246200005210 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 246200005211 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 246200005212 NMT1/THI5 like; Region: NMT1; pfam09084 246200005213 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 246200005214 substrate binding pocket [chemical binding]; other site 246200005215 membrane-bound complex binding site; other site 246200005216 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 246200005217 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 246200005218 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200005219 Walker A/P-loop; other site 246200005220 ATP binding site [chemical binding]; other site 246200005221 Q-loop/lid; other site 246200005222 ABC transporter signature motif; other site 246200005223 Walker B; other site 246200005224 D-loop; other site 246200005225 H-loop/switch region; other site 246200005226 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 246200005227 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 246200005228 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 246200005229 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; cd00200 246200005230 structural tetrad; other site 246200005231 Cytochrome c; Region: Cytochrom_C; cl11414 246200005232 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 246200005233 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 246200005234 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 246200005235 [4Fe-4S] binding site [ion binding]; other site 246200005236 molybdopterin cofactor binding site; other site 246200005237 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 246200005238 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 246200005239 molybdopterin cofactor binding site; other site 246200005240 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 246200005241 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 246200005242 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, delta subunit [Energy production and conversion]; Region: COG1144 246200005243 glycyl-radical enzyme activating protein family; Region: PFLE_PFLC; TIGR02494 246200005244 4Fe-4S binding domain; Region: Fer4; cl02805 246200005245 Cytochrome c; Region: Cytochrom_C; cl11414 246200005246 Domain of unknown function DUF59; Region: DUF59; cl00941 246200005247 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 246200005248 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200005249 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 246200005250 Flavin Reductases; Region: FlaRed; cl00801 246200005251 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 246200005252 active site 246200005253 substrate binding site [chemical binding]; other site 246200005254 catalytic site [active] 246200005255 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 246200005256 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 246200005257 ligand binding site [chemical binding]; other site 246200005258 flexible hinge region; other site 246200005259 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 246200005260 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 246200005261 metal binding triad; other site 246200005262 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 246200005263 Sodium:solute symporter family; Region: SSF; cl00456 246200005264 Predicted membrane protein [Function unknown]; Region: COG4327; cl01781 246200005265 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 246200005266 adenylate kinase; Reviewed; Region: adk; PRK00279 246200005267 AMP-binding site [chemical binding]; other site 246200005268 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 246200005269 acetyl-CoA synthetase; Provisional; Region: PRK00174 246200005270 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 246200005271 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200005272 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200005273 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200005274 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200005275 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200005276 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 246200005277 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 246200005278 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 246200005279 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 246200005280 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 246200005281 active site 246200005282 metal binding site [ion binding]; metal-binding site 246200005283 hexamer interface [polypeptide binding]; other site 246200005284 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 246200005285 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 246200005286 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 246200005287 dimer interface [polypeptide binding]; other site 246200005288 conserved gate region; other site 246200005289 putative PBP binding loops; other site 246200005290 ABC-ATPase subunit interface; other site 246200005291 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 246200005292 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 246200005293 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 246200005294 Walker A/P-loop; other site 246200005295 ATP binding site [chemical binding]; other site 246200005296 Q-loop/lid; other site 246200005297 ABC transporter signature motif; other site 246200005298 Walker B; other site 246200005299 D-loop; other site 246200005300 H-loop/switch region; other site 246200005301 TOBE domain; Region: TOBE_2; cl01440 246200005302 Helix-turn-helix domains; Region: HTH; cl00088 246200005303 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 246200005304 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 246200005305 dimerization interface [polypeptide binding]; other site 246200005306 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 246200005307 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 246200005308 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 246200005309 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 246200005310 putative active site [active] 246200005311 N-formylglutamate amidohydrolase; Region: FGase; cl01522 246200005312 Isochorismatase family; Region: Isochorismatase; pfam00857 246200005313 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 246200005314 catalytic triad [active] 246200005315 conserved cis-peptide bond; other site 246200005316 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200005317 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 246200005318 Walker A/P-loop; other site 246200005319 ATP binding site [chemical binding]; other site 246200005320 Q-loop/lid; other site 246200005321 ABC transporter signature motif; other site 246200005322 Walker B; other site 246200005323 D-loop; other site 246200005324 H-loop/switch region; other site 246200005325 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 246200005326 ligand binding site [chemical binding]; other site 246200005327 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200005328 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 246200005329 Walker A/P-loop; other site 246200005330 ATP binding site [chemical binding]; other site 246200005331 Q-loop/lid; other site 246200005332 ABC transporter signature motif; other site 246200005333 Walker B; other site 246200005334 D-loop; other site 246200005335 H-loop/switch region; other site 246200005336 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 246200005337 TM-ABC transporter signature motif; other site 246200005338 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 246200005339 TM-ABC transporter signature motif; other site 246200005340 Acetamidase/Formamidase family; Region: FmdA_AmdA; cl01023 246200005341 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 246200005342 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 246200005343 Walker A/P-loop; other site 246200005344 ATP binding site [chemical binding]; other site 246200005345 Q-loop/lid; other site 246200005346 ABC transporter signature motif; other site 246200005347 Walker B; other site 246200005348 D-loop; other site 246200005349 H-loop/switch region; other site 246200005350 TOBE domain; Region: TOBE_2; cl01440 246200005351 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 246200005352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200005353 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 246200005354 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 246200005355 dimer interface [polypeptide binding]; other site 246200005356 conserved gate region; other site 246200005357 putative PBP binding loops; other site 246200005358 ABC-ATPase subunit interface; other site 246200005359 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 246200005360 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 246200005361 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 246200005362 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 246200005363 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 246200005364 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 246200005365 putative active site [active] 246200005366 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 246200005367 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 246200005368 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 246200005369 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200005370 DNA-binding site [nucleotide binding]; DNA binding site 246200005371 UTRA domain; Region: UTRA; cl01230 246200005372 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 246200005373 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 246200005374 dimer interface [polypeptide binding]; other site 246200005375 active site 246200005376 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 246200005377 dimer interface [polypeptide binding]; other site 246200005378 active site 246200005379 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 246200005380 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 246200005381 active site 246200005382 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 246200005383 The MopB_1 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. These members belong to...; Region: MopB_1; cd02762 246200005384 putative [Fe4-S4] binding site [ion binding]; other site 246200005385 putative molybdopterin cofactor binding site [chemical binding]; other site 246200005386 The MopB_CT_1 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_1; cd02782 246200005387 putative molybdopterin cofactor binding site; other site 246200005388 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 246200005389 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_8; cd06343 246200005390 putative ligand binding site [chemical binding]; other site 246200005391 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 246200005392 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200005393 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200005394 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200005395 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 246200005396 Walker A/P-loop; other site 246200005397 ATP binding site [chemical binding]; other site 246200005398 Q-loop/lid; other site 246200005399 ABC transporter signature motif; other site 246200005400 Walker B; other site 246200005401 D-loop; other site 246200005402 H-loop/switch region; other site 246200005403 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200005404 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 246200005405 Walker A/P-loop; other site 246200005406 ATP binding site [chemical binding]; other site 246200005407 Q-loop/lid; other site 246200005408 ABC transporter signature motif; other site 246200005409 Walker B; other site 246200005410 D-loop; other site 246200005411 H-loop/switch region; other site 246200005412 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 246200005413 TM-ABC transporter signature motif; other site 246200005414 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 246200005415 TM-ABC transporter signature motif; other site 246200005416 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 246200005417 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 246200005418 NADP binding site [chemical binding]; other site 246200005419 dimer interface [polypeptide binding]; other site 246200005420 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200005421 Helix-turn-helix domains; Region: HTH; cl00088 246200005422 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 246200005423 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 246200005424 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; cl12011 246200005425 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 246200005426 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 246200005427 Virulence factor; Region: Virulence_fact; pfam13769 246200005428 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cl00246 246200005429 FAD binding site [chemical binding]; other site 246200005430 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 246200005431 Pterin binding enzyme; Region: Pterin_bind; pfam00809 246200005432 substrate binding pocket [chemical binding]; other site 246200005433 dimer interface [polypeptide binding]; other site 246200005434 inhibitor binding site; inhibition site 246200005435 transketolase; Reviewed; Region: PRK05899 246200005436 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 246200005437 TPP-binding site [chemical binding]; other site 246200005438 dimer interface [polypeptide binding]; other site 246200005439 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 246200005440 PYR/PP interface [polypeptide binding]; other site 246200005441 dimer interface [polypeptide binding]; other site 246200005442 TPP binding site [chemical binding]; other site 246200005443 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 246200005444 peptide chain release factor 2; Validated; Region: prfB; PRK00578 246200005445 Cell division protein ZapA; Region: ZapA; cl01146 246200005446 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 246200005447 putative GSH binding site [chemical binding]; other site 246200005448 catalytic residues [active] 246200005449 BolA-like protein; Region: BolA; cl00386 246200005450 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 246200005451 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 246200005452 dimerization interface [polypeptide binding]; other site 246200005453 ATP binding site [chemical binding]; other site 246200005454 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 246200005455 dimerization interface [polypeptide binding]; other site 246200005456 ATP binding site [chemical binding]; other site 246200005457 Mechanosensitive ion channel; Region: MS_channel; pfam00924 246200005458 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200005459 Helix-turn-helix domains; Region: HTH; cl00088 246200005460 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 246200005461 putative effector binding pocket; other site 246200005462 dimerization interface [polypeptide binding]; other site 246200005463 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 246200005464 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 246200005465 dimer interface [polypeptide binding]; other site 246200005466 PYR/PP interface [polypeptide binding]; other site 246200005467 TPP binding site [chemical binding]; other site 246200005468 substrate binding site [chemical binding]; other site 246200005469 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 246200005470 TPP-binding site [chemical binding]; other site 246200005471 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 246200005472 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 246200005473 putative acyl-acceptor binding pocket; other site 246200005474 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200005475 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 246200005476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200005477 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 246200005478 CcmE; Region: CcmE; cl00994 246200005479 Predicted lysozyme (DUF847); Region: DUF847; pfam05838 246200005480 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 246200005481 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 246200005482 Cytochrome C biogenesis protein; Region: CcmH; cl01179 246200005483 enoyl-CoA hydratase; Provisional; Region: PRK08140 246200005484 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 246200005485 substrate binding site [chemical binding]; other site 246200005486 oxyanion hole (OAH) forming residues; other site 246200005487 trimer interface [polypeptide binding]; other site 246200005488 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 246200005489 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 246200005490 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 246200005491 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 246200005492 Domain of unknown function (DUF1476); Region: DUF1476; cl11571 246200005493 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 246200005494 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 246200005495 ATP binding site [chemical binding]; other site 246200005496 active site 246200005497 substrate binding site [chemical binding]; other site 246200005498 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 246200005499 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 246200005500 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 246200005501 putative NAD(P) binding site [chemical binding]; other site 246200005502 catalytic Zn binding site [ion binding]; other site 246200005503 structural Zn binding site [ion binding]; other site 246200005504 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 246200005505 putative active site [active] 246200005506 catalytic triad [active] 246200005507 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 246200005508 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 246200005509 dimer interface [polypeptide binding]; other site 246200005510 phosphorylation site [posttranslational modification] 246200005511 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 246200005512 ATP binding site [chemical binding]; other site 246200005513 Mg2+ binding site [ion binding]; other site 246200005514 G-X-G motif; other site 246200005515 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 246200005516 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 246200005517 active site 246200005518 phosphorylation site [posttranslational modification] 246200005519 intermolecular recognition site; other site 246200005520 dimerization interface [polypeptide binding]; other site 246200005521 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 246200005522 Walker A motif; other site 246200005523 ATP binding site [chemical binding]; other site 246200005524 Walker B motif; other site 246200005525 arginine finger; other site 246200005526 Helix-turn-helix domains; Region: HTH; cl00088 246200005527 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 246200005528 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 246200005529 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 246200005530 CPxP motif; other site 246200005531 LysE type translocator; Region: LysE; cl00565 246200005532 Cytochrome P450; Region: p450; cl12078 246200005533 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 246200005534 catalytic residue [active] 246200005535 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 246200005536 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200005537 Helix-turn-helix domains; Region: HTH; cl00088 246200005538 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 246200005539 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 246200005540 fumarate hydratase; Reviewed; Region: fumC; PRK00485 246200005541 Class II fumarases; Region: Fumarase_classII; cd01362 246200005542 active site 246200005543 tetramer interface [polypeptide binding]; other site 246200005544 Stringent starvation protein B; Region: SspB; cl01120 246200005545 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 246200005546 Chromate transporter; Region: Chromate_transp; pfam02417 246200005547 Chromate transporter; Region: Chromate_transp; pfam02417 246200005548 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 246200005549 Transcriptional regulators [Transcription]; Region: FadR; COG2186 246200005550 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200005551 DNA-binding site [nucleotide binding]; DNA binding site 246200005552 FCD domain; Region: FCD; cl11656 246200005553 putative dimethyl sulfoniopropionate demethylase; Reviewed; Region: dmdA; PRK12486 246200005554 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200005555 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 246200005556 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 246200005557 NADP binding site [chemical binding]; other site 246200005558 dimer interface [polypeptide binding]; other site 246200005559 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 246200005560 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200005561 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 246200005562 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 246200005563 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200005564 catalytic residue [active] 246200005565 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 246200005566 DNA photolyase; Region: DNA_photolyase; pfam00875 246200005567 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 246200005568 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 246200005569 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 246200005570 S-adenosylmethionine binding site [chemical binding]; other site 246200005571 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 246200005572 putative active site pocket [active] 246200005573 dimerization interface [polypeptide binding]; other site 246200005574 putative catalytic residue [active] 246200005575 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 246200005576 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 246200005577 dimer interface [polypeptide binding]; other site 246200005578 active site 246200005579 ADP-ribose binding site [chemical binding]; other site 246200005580 nudix motif; other site 246200005581 metal binding site [ion binding]; metal-binding site 246200005582 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 246200005583 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 246200005584 dimer interface [polypeptide binding]; other site 246200005585 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200005586 catalytic residue [active] 246200005587 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 246200005588 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 246200005589 Mechanosensitive ion channel; Region: MS_channel; pfam00924 246200005590 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 246200005591 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 246200005592 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 246200005593 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 246200005594 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 246200005595 integrase; Provisional; Region: PRK09692 246200005596 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 246200005597 active site 246200005598 Int/Topo IB signature motif; other site 246200005599 Peptidase M15; Region: Peptidase_M15_3; cl01194 246200005600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 246200005601 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 246200005602 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 246200005603 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 246200005604 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 246200005605 trimer interface [polypeptide binding]; other site 246200005606 active site 246200005607 UDP-GlcNAc binding site [chemical binding]; other site 246200005608 lipid binding site [chemical binding]; lipid-binding site 246200005609 Phosphopantetheine attachment site; Region: PP-binding; cl09936 246200005610 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 246200005611 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 246200005612 dimer interface [polypeptide binding]; other site 246200005613 active site 246200005614 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 246200005615 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 246200005616 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200005617 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 246200005618 TM-ABC transporter signature motif; other site 246200005619 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 246200005620 TM-ABC transporter signature motif; other site 246200005621 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200005622 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 246200005623 Walker A/P-loop; other site 246200005624 ATP binding site [chemical binding]; other site 246200005625 Q-loop/lid; other site 246200005626 ABC transporter signature motif; other site 246200005627 Walker B; other site 246200005628 D-loop; other site 246200005629 H-loop/switch region; other site 246200005630 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200005631 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 246200005632 Walker A/P-loop; other site 246200005633 ATP binding site [chemical binding]; other site 246200005634 Q-loop/lid; other site 246200005635 ABC transporter signature motif; other site 246200005636 Walker B; other site 246200005637 D-loop; other site 246200005638 H-loop/switch region; other site 246200005639 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_11; cd06346 246200005640 putative ligand binding site [chemical binding]; other site 246200005641 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 246200005642 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 246200005643 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200005644 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 246200005645 conserved cys residue [active] 246200005646 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200005647 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 246200005648 PAS domain; Region: PAS_5; pfam07310 246200005649 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 246200005650 hypothetical protein; Provisional; Region: PRK11820 246200005651 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 246200005652 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 246200005653 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 246200005654 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 246200005655 catalytic site [active] 246200005656 G-X2-G-X-G-K; other site 246200005657 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 246200005658 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 246200005659 trimer interface [polypeptide binding]; other site 246200005660 putative metal binding site [ion binding]; other site 246200005661 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 246200005662 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 246200005663 dimer interface [polypeptide binding]; other site 246200005664 phosphorylation site [posttranslational modification] 246200005665 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 246200005666 ATP binding site [chemical binding]; other site 246200005667 Mg2+ binding site [ion binding]; other site 246200005668 G-X-G motif; other site 246200005669 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 246200005670 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 246200005671 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 246200005672 dimer interface [polypeptide binding]; other site 246200005673 conserved gate region; other site 246200005674 putative PBP binding loops; other site 246200005675 ABC-ATPase subunit interface; other site 246200005676 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 246200005677 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 246200005678 dimer interface [polypeptide binding]; other site 246200005679 conserved gate region; other site 246200005680 putative PBP binding loops; other site 246200005681 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 246200005682 ABC-ATPase subunit interface; other site 246200005683 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 246200005684 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 246200005685 Walker A/P-loop; other site 246200005686 ATP binding site [chemical binding]; other site 246200005687 Q-loop/lid; other site 246200005688 ABC transporter signature motif; other site 246200005689 Walker B; other site 246200005690 D-loop; other site 246200005691 H-loop/switch region; other site 246200005692 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 246200005693 PhoU domain; Region: PhoU; pfam01895 246200005694 PhoU domain; Region: PhoU; pfam01895 246200005695 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 246200005696 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 246200005697 active site 246200005698 phosphorylation site [posttranslational modification] 246200005699 intermolecular recognition site; other site 246200005700 dimerization interface [polypeptide binding]; other site 246200005701 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 246200005702 DNA binding site [nucleotide binding] 246200005703 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200005704 Helix-turn-helix domains; Region: HTH; cl00088 246200005705 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 246200005706 dimerization interface [polypeptide binding]; other site 246200005707 substrate binding pocket [chemical binding]; other site 246200005708 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 246200005709 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200005710 FAD binding site [chemical binding]; other site 246200005711 substrate binding pocket [chemical binding]; other site 246200005712 catalytic base [active] 246200005713 high affinity sulphate transporter 1; Region: sulP; TIGR00815 246200005714 Permease family; Region: Xan_ur_permease; cl00967 246200005715 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 246200005716 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 246200005717 classical (c) SDRs; Region: SDR_c; cd05233 246200005718 NAD(P) binding site [chemical binding]; other site 246200005719 active site 246200005720 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 246200005721 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 246200005722 active site 246200005723 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 246200005724 catalytic triad [active] 246200005725 dimer interface [polypeptide binding]; other site 246200005726 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 246200005727 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 246200005728 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200005729 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 246200005730 Transcriptional regulator [Transcription]; Region: IclR; COG1414 246200005731 Helix-turn-helix domains; Region: HTH; cl00088 246200005732 Bacterial transcriptional regulator; Region: IclR; pfam01614 246200005733 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 246200005734 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 246200005735 putative active site [active] 246200005736 putative substrate binding site [chemical binding]; other site 246200005737 ATP binding site [chemical binding]; other site 246200005738 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 246200005739 catalytic core [active] 246200005740 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 246200005741 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 246200005742 FMN binding site [chemical binding]; other site 246200005743 substrate binding site [chemical binding]; other site 246200005744 putative catalytic residue [active] 246200005745 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 246200005746 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200005747 NAD(P) binding site [chemical binding]; other site 246200005748 active site 246200005749 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 246200005750 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200005751 NAD(P) binding site [chemical binding]; other site 246200005752 active site 246200005753 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 246200005754 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 246200005755 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 246200005756 active site 246200005757 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200005758 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 246200005759 active site 246200005760 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 246200005761 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 246200005762 NAD(P) binding site [chemical binding]; other site 246200005763 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 246200005764 catalytic core [active] 246200005765 enoyl-CoA hydratase; Provisional; Region: PRK06688 246200005766 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 246200005767 substrate binding site [chemical binding]; other site 246200005768 oxyanion hole (OAH) forming residues; other site 246200005769 trimer interface [polypeptide binding]; other site 246200005770 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 246200005771 putative active site [active] 246200005772 putative catalytic site [active] 246200005773 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 246200005774 trimer interface [polypeptide binding]; other site 246200005775 active site 246200005776 dimer interface [polypeptide binding]; other site 246200005777 Autoinducer binding domain; Region: Autoind_bind; pfam03472 246200005778 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 246200005779 DNA binding residues [nucleotide binding] 246200005780 dimerization interface [polypeptide binding]; other site 246200005781 elongation factor Ts; Provisional; Region: tsf; PRK09377 246200005782 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 246200005783 Elongation factor TS; Region: EF_TS; pfam00889 246200005784 Elongation factor TS; Region: EF_TS; pfam00889 246200005785 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 246200005786 rRNA interaction site [nucleotide binding]; other site 246200005787 S8 interaction site; other site 246200005788 putative laminin-1 binding site; other site 246200005789 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 246200005790 putative acyl-acceptor binding pocket; other site 246200005791 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200005792 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 246200005793 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 246200005794 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 246200005795 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 246200005796 putative catalytic cysteine [active] 246200005797 gamma-glutamyl kinase; Provisional; Region: PRK05429 246200005798 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 246200005799 nucleotide binding site [chemical binding]; other site 246200005800 homotetrameric interface [polypeptide binding]; other site 246200005801 putative phosphate binding site [ion binding]; other site 246200005802 putative allosteric binding site; other site 246200005803 PUA domain; Region: PUA; cl00607 246200005804 GTPase CgtA; Reviewed; Region: obgE; PRK12299 246200005805 GTP1/OBG; Region: GTP1_OBG; pfam01018 246200005806 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 246200005807 G1 box; other site 246200005808 GTP/Mg2+ binding site [chemical binding]; other site 246200005809 Switch I region; other site 246200005810 G2 box; other site 246200005811 G3 box; other site 246200005812 Switch II region; other site 246200005813 G4 box; other site 246200005814 G5 box; other site 246200005815 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 246200005816 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200005817 LysE type translocator; Region: LysE; cl00565 246200005818 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 246200005819 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 246200005820 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 246200005821 Uncharacterized conserved protein [Function unknown]; Region: COG3743 246200005822 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 246200005823 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 246200005824 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 246200005825 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 246200005826 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 246200005827 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200005828 Walker A/P-loop; other site 246200005829 ATP binding site [chemical binding]; other site 246200005830 Q-loop/lid; other site 246200005831 ABC transporter signature motif; other site 246200005832 Walker B; other site 246200005833 D-loop; other site 246200005834 H-loop/switch region; other site 246200005835 conserved hypothetical protein; Region: TIGR02466 246200005836 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 246200005837 Zn binding site [ion binding]; other site 246200005838 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 246200005839 homotrimer interaction site [polypeptide binding]; other site 246200005840 putative active site [active] 246200005841 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200005842 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200005843 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 246200005844 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 246200005845 Coenzyme A binding pocket [chemical binding]; other site 246200005846 Uncharacterized conserved protein [Function unknown]; Region: COG3246 246200005847 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 246200005848 hypothetical protein; Provisional; Region: PRK07483 246200005849 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 246200005850 inhibitor-cofactor binding pocket; inhibition site 246200005851 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200005852 catalytic residue [active] 246200005853 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 246200005854 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200005855 Walker A/P-loop; other site 246200005856 ATP binding site [chemical binding]; other site 246200005857 Q-loop/lid; other site 246200005858 ABC transporter signature motif; other site 246200005859 Walker B; other site 246200005860 D-loop; other site 246200005861 H-loop/switch region; other site 246200005862 TOBE domain; Region: TOBE_2; cl01440 246200005863 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 246200005864 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 246200005865 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 246200005866 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 246200005867 dimer interface [polypeptide binding]; other site 246200005868 conserved gate region; other site 246200005869 putative PBP binding loops; other site 246200005870 ABC-ATPase subunit interface; other site 246200005871 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 246200005872 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200005873 Helix-turn-helix domains; Region: HTH; cl00088 246200005874 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 246200005875 dimerization interface [polypeptide binding]; other site 246200005876 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; cl12011 246200005877 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 246200005878 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 246200005879 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200005880 catalytic residue [active] 246200005881 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 246200005882 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 246200005883 FeS assembly ATPase SufC; Region: sufC; TIGR01978 246200005884 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 246200005885 Walker A/P-loop; other site 246200005886 ATP binding site [chemical binding]; other site 246200005887 Q-loop/lid; other site 246200005888 ABC transporter signature motif; other site 246200005889 Walker B; other site 246200005890 D-loop; other site 246200005891 H-loop/switch region; other site 246200005892 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 246200005893 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; cl12011 246200005894 Domain of unknown function (DUF74); Region: DUF74; cl00426 246200005895 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; cl12011 246200005896 S-adenosylmethionine binding site [chemical binding]; other site 246200005897 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 246200005898 putative ABC transporter; Region: ycf24; CHL00085 246200005899 Helix-turn-helix domains; Region: HTH; cl00088 246200005900 Rrf2 family protein; Region: rrf2_super; TIGR00738 246200005901 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 246200005902 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 246200005903 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 246200005904 TIGR03442 family protein; Region: TIGR03442 246200005905 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 246200005906 putative active site [active] 246200005907 putative dimer interface [polypeptide binding]; other site 246200005908 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 246200005909 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 246200005910 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 246200005911 G1 box; other site 246200005912 putative GEF interaction site [polypeptide binding]; other site 246200005913 GTP/Mg2+ binding site [chemical binding]; other site 246200005914 Switch I region; other site 246200005915 G2 box; other site 246200005916 G3 box; other site 246200005917 Switch II region; other site 246200005918 G4 box; other site 246200005919 G5 box; other site 246200005920 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 246200005921 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 246200005922 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 246200005923 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 246200005924 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 246200005925 motif 1; other site 246200005926 active site 246200005927 motif 2; other site 246200005928 motif 3; other site 246200005929 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 246200005930 recombinase A; Provisional; Region: recA; PRK09354 246200005931 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 246200005932 hexamer interface [polypeptide binding]; other site 246200005933 Walker A motif; other site 246200005934 ATP binding site [chemical binding]; other site 246200005935 Walker B motif; other site 246200005936 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 246200005937 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 246200005938 dimer interface [polypeptide binding]; other site 246200005939 phosphorylation site [posttranslational modification] 246200005940 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 246200005941 ATP binding site [chemical binding]; other site 246200005942 Mg2+ binding site [ion binding]; other site 246200005943 G-X-G motif; other site 246200005944 Response regulator receiver domain; Region: Response_reg; pfam00072 246200005945 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 246200005946 active site 246200005947 phosphorylation site [posttranslational modification] 246200005948 intermolecular recognition site; other site 246200005949 dimerization interface [polypeptide binding]; other site 246200005950 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; cl12011 246200005951 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200005952 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 246200005953 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 246200005954 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 246200005955 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 246200005956 active site 246200005957 putative CoA-transferase; Provisional; Region: PRK11430 246200005958 CoA-transferase family III; Region: CoA_transf_3; pfam02515 246200005959 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 246200005960 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 246200005961 catalytic loop [active] 246200005962 iron binding site [ion binding]; other site 246200005963 hypothetical protein; Provisional; Region: PRK08317 246200005964 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 246200005965 S-adenosylmethionine binding site [chemical binding]; other site 246200005966 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 246200005967 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200005968 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 246200005969 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 246200005970 active site 246200005971 dimer interface [polypeptide binding]; other site 246200005972 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 246200005973 dimer interface [polypeptide binding]; other site 246200005974 active site 246200005975 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 246200005976 putative active site [active] 246200005977 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 246200005978 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 246200005979 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 246200005980 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 246200005981 FeS/SAM binding site; other site 246200005982 Usg-like family; Region: Usg; cl11567 246200005983 DNA gyrase subunit A; Validated; Region: PRK05560 246200005984 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 246200005985 CAP-like domain; other site 246200005986 active site 246200005987 primary dimer interface [polypeptide binding]; other site 246200005988 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 246200005989 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 246200005990 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 246200005991 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 246200005992 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 246200005993 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 246200005994 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 246200005995 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 246200005996 active site 246200005997 Zn binding site [ion binding]; other site 246200005998 cytochrome c oxidase assembly protein; Provisional; Region: PTZ00127 246200005999 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 246200006000 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 246200006001 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 246200006002 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 246200006003 thiamine phosphate binding site [chemical binding]; other site 246200006004 active site 246200006005 pyrophosphate binding site [ion binding]; other site 246200006006 HupE / UreJ protein; Region: HupE_UreJ; cl01011 246200006007 Nickel uptake substrate-specific transmembrane region; Region: NikM; pfam10670 246200006008 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200006009 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 246200006010 C-terminal domain interface [polypeptide binding]; other site 246200006011 GSH binding site (G-site) [chemical binding]; other site 246200006012 dimer interface [polypeptide binding]; other site 246200006013 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 246200006014 N-terminal domain interface [polypeptide binding]; other site 246200006015 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 246200006016 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 246200006017 substrate binding site [chemical binding]; other site 246200006018 ATP binding site [chemical binding]; other site 246200006019 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 246200006020 Protein of unknown function (DUF502); Region: DUF502; cl01107 246200006021 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 246200006022 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 246200006023 active site 246200006024 nucleophile elbow; other site 246200006025 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006026 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 246200006027 NAD(P) binding site [chemical binding]; other site 246200006028 active site 246200006029 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 246200006030 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 246200006031 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 246200006032 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 246200006033 non-specific DNA binding site [nucleotide binding]; other site 246200006034 salt bridge; other site 246200006035 sequence-specific DNA binding site [nucleotide binding]; other site 246200006036 Cupin domain; Region: Cupin_2; cl09118 246200006037 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 246200006038 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200006039 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 246200006040 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 246200006041 catalytic residues [active] 246200006042 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 246200006043 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 246200006044 putative substrate translocation pore; other site 246200006045 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 246200006046 binding surface 246200006047 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 246200006048 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 246200006049 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 246200006050 ATP binding site [chemical binding]; other site 246200006051 putative Mg++ binding site [ion binding]; other site 246200006052 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 246200006053 nucleotide binding region [chemical binding]; other site 246200006054 ATP-binding site [chemical binding]; other site 246200006055 TRCF domain; Region: TRCF; cl04088 246200006056 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 246200006057 dimer interface [polypeptide binding]; other site 246200006058 active site 246200006059 aspartate-rich active site metal binding site; other site 246200006060 allosteric magnesium binding site [ion binding]; other site 246200006061 Schiff base residues; other site 246200006062 Family of unknown function (DUF500); Region: DUF500; cl01109 246200006063 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 246200006064 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 246200006065 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 246200006066 active site 246200006067 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 246200006068 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 246200006069 G1 box; other site 246200006070 GTP/Mg2+ binding site [chemical binding]; other site 246200006071 Switch I region; other site 246200006072 G2 box; other site 246200006073 G3 box; other site 246200006074 Switch II region; other site 246200006075 G4 box; other site 246200006076 G5 box; other site 246200006077 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 246200006078 Sm1 motif; other site 246200006079 intra - hexamer interaction site; other site 246200006080 inter - hexamer interaction site [polypeptide binding]; other site 246200006081 nucleotide binding pocket [chemical binding]; other site 246200006082 Sm2 motif; other site 246200006083 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 246200006084 Cation transport protein; Region: TrkH; cl10514 246200006085 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 246200006086 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006087 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 246200006088 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006089 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 246200006090 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 246200006091 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 246200006092 active site 246200006093 phosphorylation site [posttranslational modification] 246200006094 intermolecular recognition site; other site 246200006095 dimerization interface [polypeptide binding]; other site 246200006096 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 246200006097 Walker A motif; other site 246200006098 ATP binding site [chemical binding]; other site 246200006099 Walker B motif; other site 246200006100 arginine finger; other site 246200006101 Helix-turn-helix domains; Region: HTH; cl00088 246200006102 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 246200006103 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 246200006104 dimerization interface [polypeptide binding]; other site 246200006105 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 246200006106 dimer interface [polypeptide binding]; other site 246200006107 phosphorylation site [posttranslational modification] 246200006108 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 246200006109 ATP binding site [chemical binding]; other site 246200006110 Mg2+ binding site [ion binding]; other site 246200006111 G-X-G motif; other site 246200006112 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 246200006113 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 246200006114 active site 246200006115 phosphorylation site [posttranslational modification] 246200006116 intermolecular recognition site; other site 246200006117 dimerization interface [polypeptide binding]; other site 246200006118 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 246200006119 Walker A motif; other site 246200006120 ATP binding site [chemical binding]; other site 246200006121 Walker B motif; other site 246200006122 arginine finger; other site 246200006123 Helix-turn-helix domains; Region: HTH; cl00088 246200006124 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 246200006125 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 246200006126 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 246200006127 dimer interface [polypeptide binding]; other site 246200006128 phosphorylation site [posttranslational modification] 246200006129 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 246200006130 ATP binding site [chemical binding]; other site 246200006131 G-X-G motif; other site 246200006132 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 246200006133 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 246200006134 FMN binding site [chemical binding]; other site 246200006135 active site 246200006136 catalytic residues [active] 246200006137 substrate binding site [chemical binding]; other site 246200006138 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 246200006139 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 246200006140 substrate binding site; other site 246200006141 dimer interface; other site 246200006142 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 246200006143 homotrimer interaction site [polypeptide binding]; other site 246200006144 zinc binding site [ion binding]; other site 246200006145 CDP-binding sites; other site 246200006146 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 246200006147 tetramer interfaces [polypeptide binding]; other site 246200006148 binuclear metal-binding site [ion binding]; other site 246200006149 Competence-damaged protein; Region: CinA; cl00666 246200006150 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 246200006151 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200006152 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 246200006153 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 246200006154 putative coenzyme Q binding site [chemical binding]; other site 246200006155 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 246200006156 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200006157 Helix-turn-helix domains; Region: HTH; cl00088 246200006158 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 246200006159 dimerization interface [polypeptide binding]; other site 246200006160 Cytochrome C'; Region: Cytochrom_C_2; cl01610 246200006161 Cytochrome c; Region: Cytochrom_C; cl11414 246200006162 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 246200006163 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like3; cd05668 246200006164 metal binding site [ion binding]; metal-binding site 246200006165 putative dimer interface [polypeptide binding]; other site 246200006166 lipoyl synthase; Provisional; Region: PRK05481 246200006167 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 246200006168 FeS/SAM binding site; other site 246200006169 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 246200006170 catalytic triad [active] 246200006171 dimer interface [polypeptide binding]; other site 246200006172 Cupin domain; Region: Cupin_2; cl09118 246200006173 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 246200006174 Helix-turn-helix domains; Region: HTH; cl00088 246200006175 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 246200006176 dimerization interface [polypeptide binding]; other site 246200006177 Helix-turn-helix domains; Region: HTH; cl00088 246200006178 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 246200006179 GMP synthase; Reviewed; Region: guaA; PRK00074 246200006180 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 246200006181 AMP/PPi binding site [chemical binding]; other site 246200006182 candidate oxyanion hole; other site 246200006183 catalytic triad [active] 246200006184 potential glutamine specificity residues [chemical binding]; other site 246200006185 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 246200006186 ATP Binding subdomain [chemical binding]; other site 246200006187 Ligand Binding sites [chemical binding]; other site 246200006188 Dimerization subdomain; other site 246200006189 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 246200006190 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl09488 246200006191 EamA-like transporter family; Region: EamA; cl01037 246200006192 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 246200006193 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 246200006194 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200006195 Helix-turn-helix domains; Region: HTH; cl00088 246200006196 Arginase family; Region: Arginase; cl00306 246200006197 Amidinotransferase; Region: Amidinotransf; cl12043 246200006198 ornithine cyclodeaminase; Validated; Region: PRK07589 246200006199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006200 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 246200006201 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 246200006202 PhnA protein; Region: PhnA; pfam03831 246200006203 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 246200006204 active site 246200006205 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 246200006206 pseudouridine synthase; Region: TIGR00093 246200006207 active site 246200006208 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200006209 Predicted esterase [General function prediction only]; Region: COG0400 246200006210 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 246200006211 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 246200006212 helix-hairpin-helix signature motif; other site 246200006213 substrate binding pocket [chemical binding]; other site 246200006214 active site 246200006215 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200006216 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 246200006217 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 246200006218 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 246200006219 active site 246200006220 catalytic residues [active] 246200006221 metal binding site [ion binding]; metal-binding site 246200006222 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 246200006223 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 246200006224 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 246200006225 active site 246200006226 HIGH motif; other site 246200006227 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 246200006228 KMSKS motif; other site 246200006229 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 246200006230 aspartate aminotransferase; Provisional; Region: PRK05764 246200006231 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 246200006232 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200006233 homodimer interface [polypeptide binding]; other site 246200006234 catalytic residue [active] 246200006235 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl01155 246200006236 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 246200006237 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 246200006238 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 246200006239 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 246200006240 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 246200006241 active site 246200006242 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 246200006243 TSCPD domain; Region: TSCPD; cl14834 246200006244 Uncharacterized ACR, COG1430; Region: DUF192; cl00627 246200006245 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 246200006246 DNA-binding site [nucleotide binding]; DNA binding site 246200006247 RNA-binding motif; other site 246200006248 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 246200006249 DNA-binding site [nucleotide binding]; DNA binding site 246200006250 RNA-binding motif; other site 246200006251 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 246200006252 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 246200006253 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 246200006254 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 246200006255 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 246200006256 NAD binding site [chemical binding]; other site 246200006257 homotetramer interface [polypeptide binding]; other site 246200006258 homodimer interface [polypeptide binding]; other site 246200006259 substrate binding site [chemical binding]; other site 246200006260 active site 246200006261 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 246200006262 hypothetical protein; Provisional; Region: PRK07550 246200006263 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 246200006264 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200006265 homodimer interface [polypeptide binding]; other site 246200006266 catalytic residue [active] 246200006267 periplasmic folding chaperone; Provisional; Region: PRK10788 246200006268 anthranilate synthase component I; Provisional; Region: PRK13573 246200006269 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 246200006270 chorismate binding enzyme; Region: Chorismate_bind; cl10555 246200006271 HutD; Region: HutD; cl01532 246200006272 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 246200006273 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 246200006274 NodB motif; other site 246200006275 putative active site [active] 246200006276 putative catalytic site [active] 246200006277 Zn binding site [ion binding]; other site 246200006278 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 246200006279 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 246200006280 glutamine binding [chemical binding]; other site 246200006281 catalytic triad [active] 246200006282 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 246200006283 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 246200006284 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 246200006285 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 246200006286 active site 246200006287 ribulose/triose binding site [chemical binding]; other site 246200006288 phosphate binding site [ion binding]; other site 246200006289 substrate (anthranilate) binding pocket [chemical binding]; other site 246200006290 product (indole) binding pocket [chemical binding]; other site 246200006291 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 246200006292 trimer interface [polypeptide binding]; other site 246200006293 dimer interface [polypeptide binding]; other site 246200006294 putative active site [active] 246200006295 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 246200006296 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 246200006297 dimer interface [polypeptide binding]; other site 246200006298 putative functional site; other site 246200006299 putative MPT binding site; other site 246200006300 LexA repressor; Validated; Region: PRK00215 246200006301 Helix-turn-helix domains; Region: HTH; cl00088 246200006302 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 246200006303 Catalytic site [active] 246200006304 ComEC family competence protein; Provisional; Region: PRK11539 246200006305 Competence protein; Region: Competence; cl00471 246200006306 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 246200006307 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 246200006308 HIGH motif; other site 246200006309 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 246200006310 active site 246200006311 KMSKS motif; other site 246200006312 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 246200006313 dimer interface [polypeptide binding]; other site 246200006314 Citrate synthase; Region: Citrate_synt; pfam00285 246200006315 active site 246200006316 citrylCoA binding site [chemical binding]; other site 246200006317 NADH binding [chemical binding]; other site 246200006318 cationic pore residues; other site 246200006319 oxalacetate/citrate binding site [chemical binding]; other site 246200006320 coenzyme A binding site [chemical binding]; other site 246200006321 catalytic triad [active] 246200006322 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 246200006323 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 246200006324 FeS/SAM binding site; other site 246200006325 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 246200006326 B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or...; Region: corrinoid_protein_B12-BD; cd02070 246200006327 B12 binding site [chemical binding]; other site 246200006328 cobalt ligand [ion binding]; other site 246200006329 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; cl14780 246200006330 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 246200006331 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200006332 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 246200006333 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 246200006334 dimer interface [polypeptide binding]; other site 246200006335 N-terminal domain interface [polypeptide binding]; other site 246200006336 putative substrate binding pocket (H-site) [chemical binding]; other site 246200006337 Predicted transcriptional regulator [Transcription]; Region: COG2378 246200006338 Helix-turn-helix domains; Region: HTH; cl00088 246200006339 Fe-S metabolism associated domain; Region: SufE; cl00951 246200006340 ribonuclease D; Region: rnd; TIGR01388 246200006341 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 246200006342 putative active site [active] 246200006343 catalytic site [active] 246200006344 putative substrate binding site [chemical binding]; other site 246200006345 HRDC domain; Region: HRDC; cl02578 246200006346 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 246200006347 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 246200006348 active site 246200006349 substrate binding site [chemical binding]; other site 246200006350 cosubstrate binding site; other site 246200006351 catalytic site [active] 246200006352 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 246200006353 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 246200006354 dimerization interface [polypeptide binding]; other site 246200006355 putative ATP binding site [chemical binding]; other site 246200006356 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200006357 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200006358 Helix-turn-helix domains; Region: HTH; cl00088 246200006359 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 246200006360 putative effector binding pocket; other site 246200006361 dimerization interface [polypeptide binding]; other site 246200006362 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 246200006363 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 246200006364 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 246200006365 dimer interface [polypeptide binding]; other site 246200006366 phosphorylation site [posttranslational modification] 246200006367 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 246200006368 ATP binding site [chemical binding]; other site 246200006369 Mg2+ binding site [ion binding]; other site 246200006370 G-X-G motif; other site 246200006371 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 246200006372 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200006373 Domain of unknown function DUF20; Region: UPF0118; cl00465 246200006374 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 246200006375 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 246200006376 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 246200006377 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 246200006378 putative active site [active] 246200006379 catalytic site [active] 246200006380 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 246200006381 putative active site [active] 246200006382 catalytic site [active] 246200006383 Ion channel; Region: Ion_trans_2; cl11596 246200006384 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 246200006385 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 246200006386 Walker A/P-loop; other site 246200006387 ATP binding site [chemical binding]; other site 246200006388 Q-loop/lid; other site 246200006389 ABC transporter signature motif; other site 246200006390 Walker B; other site 246200006391 D-loop; other site 246200006392 H-loop/switch region; other site 246200006393 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 246200006394 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 246200006395 putative heme binding pocket [chemical binding]; other site 246200006396 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 246200006397 Ligand Binding Site [chemical binding]; other site 246200006398 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200006399 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200006400 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 246200006401 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 246200006402 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 246200006403 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200006404 Helix-turn-helix domains; Region: HTH; cl00088 246200006405 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 246200006406 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200006407 DNA-binding site [nucleotide binding]; DNA binding site 246200006408 UTRA domain; Region: UTRA; cl01230 246200006409 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 246200006410 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 246200006411 active site 246200006412 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 246200006413 active sites [active] 246200006414 tetramer interface [polypeptide binding]; other site 246200006415 N-formylglutamate amidohydrolase; Region: FGase; cl01522 246200006416 urocanate hydratase; Provisional; Region: PRK05414 246200006417 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 246200006418 Metallo-dependent hydrolases, subgroup D 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_E; cd01313 246200006419 active site 246200006420 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 246200006421 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 246200006422 metal binding site [ion binding]; metal-binding site 246200006423 putative dimer interface [polypeptide binding]; other site 246200006424 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; cd00640 246200006425 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200006426 catalytic residue [active] 246200006427 Protein of unknown function (DUF808); Region: DUF808; cl01002 246200006428 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 246200006429 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 246200006430 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 246200006431 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 246200006432 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 246200006433 active site 246200006434 (T/H)XGH motif; other site 246200006435 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 246200006436 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200006437 Helix-turn-helix domains; Region: HTH; cl00088 246200006438 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 246200006439 dimerization interface [polypeptide binding]; other site 246200006440 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 246200006441 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200006442 tetrameric interface [polypeptide binding]; other site 246200006443 NAD binding site [chemical binding]; other site 246200006444 catalytic residues [active] 246200006445 DsrE/DsrF-like family; Region: DrsE; cl00672 246200006446 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 246200006447 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 246200006448 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; cl12011 246200006449 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 246200006450 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 246200006451 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl01922 246200006452 Asp-box motif; other site 246200006453 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200006454 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200006455 active site 246200006456 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 246200006457 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 246200006458 substrate binding site [chemical binding]; other site 246200006459 oxyanion hole (OAH) forming residues; other site 246200006460 trimer interface [polypeptide binding]; other site 246200006461 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006462 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 246200006463 Sulfatase; Region: Sulfatase; cl10460 246200006464 choline-sulfatase; Region: chol_sulfatase; TIGR03417 246200006465 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 246200006466 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200006467 Zn binding site [ion binding]; other site 246200006468 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 246200006469 non-specific DNA binding site [nucleotide binding]; other site 246200006470 salt bridge; other site 246200006471 sequence-specific DNA binding site [nucleotide binding]; other site 246200006472 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 246200006473 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 246200006474 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 246200006475 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 246200006476 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 246200006477 active site residue [active] 246200006478 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; cl12011 246200006479 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 246200006480 metal ion-dependent adhesion site (MIDAS); other site 246200006481 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 246200006482 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006483 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006484 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 246200006485 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 246200006486 Bacterial protein of unknown function (DUF924); Region: DUF924; cl01561 246200006487 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 246200006488 putative substrate translocation pore; other site 246200006489 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 246200006490 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 246200006491 AsmA family; Region: AsmA; pfam05170 246200006492 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 246200006493 catalytic triad [active] 246200006494 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 246200006495 dinuclear metal binding motif [ion binding]; other site 246200006496 Peptidase family M23; Region: Peptidase_M23; pfam01551 246200006497 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 246200006498 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 246200006499 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 246200006500 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 246200006501 active site 246200006502 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 246200006503 active site 246200006504 Phosphoglycerate kinase; Region: PGK; pfam00162 246200006505 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 246200006506 substrate binding site [chemical binding]; other site 246200006507 hinge regions; other site 246200006508 ADP binding site [chemical binding]; other site 246200006509 catalytic site [active] 246200006510 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 246200006511 Helix-turn-helix domains; Region: HTH; cl00088 246200006512 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 246200006513 dimerization interface [polypeptide binding]; other site 246200006514 Septum formation initiator; Region: DivIC; cl11433 246200006515 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 246200006516 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 246200006517 tetramer interface [polypeptide binding]; other site 246200006518 TPP-binding site [chemical binding]; other site 246200006519 heterodimer interface [polypeptide binding]; other site 246200006520 phosphorylation loop region [posttranslational modification] 246200006521 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 246200006522 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 246200006523 E3 interaction surface; other site 246200006524 lipoyl attachment site [posttranslational modification]; other site 246200006525 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 246200006526 alpha subunit interface [polypeptide binding]; other site 246200006527 TPP binding site [chemical binding]; other site 246200006528 heterodimer interface [polypeptide binding]; other site 246200006529 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 246200006530 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 246200006531 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 246200006532 E3 interaction surface; other site 246200006533 lipoyl attachment site [posttranslational modification]; other site 246200006534 e3 binding domain; Region: E3_binding; pfam02817 246200006535 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 246200006536 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 246200006537 S-adenosylmethionine binding site [chemical binding]; other site 246200006538 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 246200006539 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 246200006540 dimer interface [polypeptide binding]; other site 246200006541 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200006542 catalytic residue [active] 246200006543 serine acetyltransferase; Provisional; Region: cysE; PRK11132 246200006544 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 246200006545 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 246200006546 trimer interface [polypeptide binding]; other site 246200006547 active site 246200006548 substrate binding site [chemical binding]; other site 246200006549 CoA binding site [chemical binding]; other site 246200006550 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 246200006551 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 246200006552 Putative phage tail protein; Region: Phage-tail_3; pfam13550 246200006553 NlpC/P60 family; Region: NLPC_P60; cl11438 246200006554 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 246200006555 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 246200006556 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 246200006557 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; cl02268 246200006558 Conserved hypothetical phage protein (DUF2376); Region: DUF2376; cl09774 246200006559 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 246200006560 Phage major tail protein 2; Region: Phage_tail_2; cl11463 246200006561 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 246200006562 Phage head-tail joining protein; Region: Phage_H_T_join; cl11461 246200006563 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 246200006564 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 246200006565 oligomerization interface [polypeptide binding]; other site 246200006566 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 246200006567 Phage capsid family; Region: Phage_capsid; pfam05065 246200006568 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 246200006569 Phage-related protein [Function unknown]; Region: COG4695; cl01923 246200006570 Phage portal protein; Region: Phage_portal; pfam04860 246200006571 Uncharacterized conserved protein [Function unknown]; Region: COG5323 246200006572 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 246200006573 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 246200006574 YceG-like family; Region: YceG; pfam02618 246200006575 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 246200006576 dimerization interface [polypeptide binding]; other site 246200006577 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 246200006578 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 246200006579 dimer interface [polypeptide binding]; other site 246200006580 active site 246200006581 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 246200006582 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 246200006583 catalytic residues [active] 246200006584 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200006585 Phosphopantetheine attachment site; Region: PP-binding; cl09936 246200006586 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 246200006587 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 246200006588 NAD(P) binding site [chemical binding]; other site 246200006589 homotetramer interface [polypeptide binding]; other site 246200006590 homodimer interface [polypeptide binding]; other site 246200006591 active site 246200006592 Acyl transferase domain; Region: Acyl_transf_1; cl08282 246200006593 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 246200006594 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 246200006595 YceI-like domain; Region: YceI; cl01001 246200006596 YceI-like domain; Region: YceI; cl01001 246200006597 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 246200006598 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 246200006599 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 246200006600 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 246200006601 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 246200006602 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 246200006603 N-acetyl-D-glucosamine binding site [chemical binding]; other site 246200006604 catalytic residue [active] 246200006605 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 246200006606 non-specific DNA binding site [nucleotide binding]; other site 246200006607 salt bridge; other site 246200006608 sequence-specific DNA binding site [nucleotide binding]; other site 246200006609 hypothetical protein; Region: PHA00733 246200006610 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 246200006611 Autoinducer binding domain; Region: Autoind_bind; pfam03472 246200006612 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 246200006613 DNA binding residues [nucleotide binding] 246200006614 dimerization interface [polypeptide binding]; other site 246200006615 Autoinducer synthetase; Region: Autoind_synth; pfam00765 246200006616 trigger factor; Provisional; Region: tig; PRK01490 246200006617 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 246200006618 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 246200006619 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; cl00284 246200006620 Hint domain; Region: Hint_2; pfam13403 246200006621 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 246200006622 putative carbohydrate kinase; Provisional; Region: PRK10565 246200006623 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 246200006624 putative substrate binding site [chemical binding]; other site 246200006625 putative ATP binding site [chemical binding]; other site 246200006626 Nitrogen regulatory protein P-II; Region: P-II; cl00412 246200006627 glutamine synthetase; Provisional; Region: glnA; PRK09469 246200006628 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 246200006629 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 246200006630 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 246200006631 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 246200006632 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 246200006633 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 246200006634 active site 246200006635 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200006636 OsmC-like protein; Region: OsmC; cl00767 246200006637 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 246200006638 adenylosuccinate lyase; Provisional; Region: PRK07492 246200006639 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 246200006640 tetramer interface [polypeptide binding]; other site 246200006641 active site 246200006642 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 246200006643 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 246200006644 FliG C-terminal domain; Region: FliG_C; pfam01706 246200006645 EamA-like transporter family; Region: EamA; cl01037 246200006646 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 246200006647 putative acyl-acceptor binding pocket; other site 246200006648 Protein of unknown function (DUF1223); Region: DUF1223; cl10501 246200006649 aconitate hydratase; Validated; Region: PRK09277 246200006650 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 246200006651 substrate binding site [chemical binding]; other site 246200006652 ligand binding site [chemical binding]; other site 246200006653 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 246200006654 substrate binding site [chemical binding]; other site 246200006655 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 246200006656 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 246200006657 catalytic residues [active] 246200006658 central insert; other site 246200006659 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 246200006660 CcmB protein; Region: CcmB; cl01016 246200006661 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 246200006662 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200006663 Walker A/P-loop; other site 246200006664 ATP binding site [chemical binding]; other site 246200006665 Q-loop/lid; other site 246200006666 ABC transporter signature motif; other site 246200006667 Walker B; other site 246200006668 D-loop; other site 246200006669 H-loop/switch region; other site 246200006670 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 246200006671 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 246200006672 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 246200006673 Protein export membrane protein; Region: SecD_SecF; cl14618 246200006674 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 246200006675 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 246200006676 Protein export membrane protein; Region: SecD_SecF; cl14618 246200006677 Preprotein translocase subunit; Region: YajC; cl00806 246200006678 Mechanosensitive ion channel; Region: MS_channel; pfam00924 246200006679 SET domain; Region: SET; cl02566 246200006680 seryl-tRNA synthetase; Provisional; Region: PRK05431 246200006681 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 246200006682 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 246200006683 dimer interface [polypeptide binding]; other site 246200006684 active site 246200006685 motif 1; other site 246200006686 motif 2; other site 246200006687 motif 3; other site 246200006688 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 246200006689 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 246200006690 putative di-iron ligands [ion binding]; other site 246200006691 GTP-binding protein Der; Reviewed; Region: PRK00093 246200006692 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA1; cd01894 246200006693 G1 box; other site 246200006694 GTP/Mg2+ binding site [chemical binding]; other site 246200006695 Switch I region; other site 246200006696 G2 box; other site 246200006697 Switch II region; other site 246200006698 G3 box; other site 246200006699 G4 box; other site 246200006700 G5 box; other site 246200006701 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA2; cd01895 246200006702 G1 box; other site 246200006703 GTP/Mg2+ binding site [chemical binding]; other site 246200006704 Switch I region; other site 246200006705 G2 box; other site 246200006706 G3 box; other site 246200006707 Switch II region; other site 246200006708 G4 box; other site 246200006709 G5 box; other site 246200006710 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 246200006711 Trp docking motif [polypeptide binding]; other site 246200006712 active site 246200006713 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 246200006714 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 246200006715 Protein export membrane protein; Region: SecD_SecF; cl14618 246200006716 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 246200006717 exosortase E/protease, VPEID-CTERM system; Region: exo_VPEID; TIGR04162 246200006718 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 246200006719 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 246200006720 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 246200006721 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 246200006722 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 246200006723 Walker A/P-loop; other site 246200006724 ATP binding site [chemical binding]; other site 246200006725 Q-loop/lid; other site 246200006726 ABC transporter signature motif; other site 246200006727 Walker B; other site 246200006728 D-loop; other site 246200006729 H-loop/switch region; other site 246200006730 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 246200006731 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 246200006732 putative peptidoglycan binding site; other site 246200006733 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 246200006734 Predicted permeases [General function prediction only]; Region: RarD; COG2962 246200006735 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 246200006736 substrate binding site [chemical binding]; other site 246200006737 oxyanion hole (OAH) forming residues; other site 246200006738 trimer interface [polypeptide binding]; other site 246200006739 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 246200006740 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 246200006741 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 246200006742 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; cl12011 246200006743 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 246200006744 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 246200006745 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006746 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200006747 Sarcosine oxidase, delta subunit family; Region: SoxD; cl01767 246200006748 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006749 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200006750 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 246200006751 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 246200006752 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 246200006753 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 246200006754 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200006755 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200006756 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 246200006757 Helix-turn-helix domains; Region: HTH; cl00088 246200006758 Transcriptional regulator [Transcription]; Region: IclR; COG1414 246200006759 Bacterial transcriptional regulator; Region: IclR; pfam01614 246200006760 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200006761 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200006762 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200006763 choline dehydrogenase; Validated; Region: PRK02106 246200006764 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006765 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 246200006766 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 246200006767 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 246200006768 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 246200006769 ATP binding site [chemical binding]; other site 246200006770 Mg2+ binding site [ion binding]; other site 246200006771 G-X-G motif; other site 246200006772 Response regulator receiver domain; Region: Response_reg; pfam00072 246200006773 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 246200006774 active site 246200006775 phosphorylation site [posttranslational modification] 246200006776 intermolecular recognition site; other site 246200006777 dimerization interface [polypeptide binding]; other site 246200006778 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 246200006779 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 246200006780 substrate binding pocket [chemical binding]; other site 246200006781 membrane-bound complex binding site; other site 246200006782 hinge residues; other site 246200006783 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 246200006784 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 246200006785 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 246200006786 motif II; other site 246200006787 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 246200006788 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 246200006789 substrate binding pocket [chemical binding]; other site 246200006790 membrane-bound complex binding site; other site 246200006791 hinge residues; other site 246200006792 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 246200006793 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 246200006794 dimer interface [polypeptide binding]; other site 246200006795 putative PBP binding loops; other site 246200006796 ABC-ATPase subunit interface; other site 246200006797 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 246200006798 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 246200006799 dimer interface [polypeptide binding]; other site 246200006800 conserved gate region; other site 246200006801 putative PBP binding loops; other site 246200006802 ABC-ATPase subunit interface; other site 246200006803 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 246200006804 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 246200006805 Walker A/P-loop; other site 246200006806 ATP binding site [chemical binding]; other site 246200006807 Q-loop/lid; other site 246200006808 ABC transporter signature motif; other site 246200006809 Walker B; other site 246200006810 D-loop; other site 246200006811 H-loop/switch region; other site 246200006812 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 246200006813 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 246200006814 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200006815 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 246200006816 active site 246200006817 phosphorylation site [posttranslational modification] 246200006818 intermolecular recognition site; other site 246200006819 dimerization interface [polypeptide binding]; other site 246200006820 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 246200006821 DNA binding residues [nucleotide binding] 246200006822 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 246200006823 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 246200006824 Ligand Binding Site [chemical binding]; other site 246200006825 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200006826 Helix-turn-helix domains; Region: HTH; cl00088 246200006827 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 246200006828 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 246200006829 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 246200006830 FMN binding site [chemical binding]; other site 246200006831 active site 246200006832 catalytic residues [active] 246200006833 substrate binding site [chemical binding]; other site 246200006834 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006835 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 246200006836 catalytic loop [active] 246200006837 iron binding site [ion binding]; other site 246200006838 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 246200006839 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200006840 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200006841 active site 246200006842 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200006843 Helix-turn-helix domains; Region: HTH; cl00088 246200006844 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 246200006845 putative dimerization interface [polypeptide binding]; other site 246200006846 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 246200006847 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 246200006848 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 246200006849 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 246200006850 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 246200006851 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 246200006852 PYR/PP interface [polypeptide binding]; other site 246200006853 dimer interface [polypeptide binding]; other site 246200006854 TPP binding site [chemical binding]; other site 246200006855 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 246200006856 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 246200006857 TPP-binding site; other site 246200006858 dimer interface [polypeptide binding]; other site 246200006859 Transthyretin_like. This domain is present in the transthyretin-like protein (TLP) family which includes transthyretin (TTR) and a transthyretin-related protein called 5-hydroxyisourate hydrolase (HIUase). TTR and HIUase are homotetrameric proteins...; Region: Transthyretin_like; cl01000 246200006860 active site 246200006861 homotetramer interface [polypeptide binding]; other site 246200006862 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 246200006863 FAD binding domain; Region: FAD_binding_4; pfam01565 246200006864 LysE type translocator; Region: LysE; cl00565 246200006865 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 246200006866 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 246200006867 molybdopterin cofactor binding site [chemical binding]; other site 246200006868 substrate binding site [chemical binding]; other site 246200006869 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 246200006870 molybdopterin cofactor binding site; other site 246200006871 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 246200006872 Int/Topo IB signature motif; other site 246200006873 active site 246200006874 DNA binding site [nucleotide binding] 246200006875 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 246200006876 putative hydrophobic ligand binding site [chemical binding]; other site 246200006877 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 246200006878 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 246200006879 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 246200006880 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 246200006881 metal ion-dependent adhesion site (MIDAS); other site 246200006882 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 246200006883 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 246200006884 Walker A motif; other site 246200006885 ATP binding site [chemical binding]; other site 246200006886 Walker B motif; other site 246200006887 arginine finger; other site 246200006888 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 246200006889 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 246200006890 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 246200006891 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 246200006892 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 246200006893 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 246200006894 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 246200006895 FAD binding domain; Region: FAD_binding_4; pfam01565 246200006896 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 246200006897 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 246200006898 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 246200006899 LytTr DNA-binding domain; Region: LytTR; cl04498 246200006900 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 246200006901 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 246200006902 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200006903 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 246200006904 Int/Topo IB signature motif; other site 246200006905 active site 246200006906 DNA binding site [nucleotide binding] 246200006907 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 246200006908 Integrase core domain; Region: rve; cl01316 246200006909 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 246200006910 classical (c) SDRs; Region: SDR_c; cd05233 246200006911 NAD(P) binding site [chemical binding]; other site 246200006912 active site 246200006913 Dehydratase family; Region: ILVD_EDD; cl00340 246200006914 hypothetical protein; Validated; Region: PRK06201 246200006915 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 246200006916 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 246200006917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006918 NAD(P) binding site [chemical binding]; other site 246200006919 active site 246200006920 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 246200006921 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 246200006922 active site pocket [active] 246200006923 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 246200006924 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 246200006925 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006926 TcdA/TcdB pore forming domain; Region: TcdA_TcdB_pore; pfam12920 246200006927 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 246200006928 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 246200006929 NADP binding site [chemical binding]; other site 246200006930 homodimer interface [polypeptide binding]; other site 246200006931 active site 246200006932 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 246200006933 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 246200006934 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 246200006935 substrate binding site [chemical binding]; other site 246200006936 ATP binding site [chemical binding]; other site 246200006937 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006938 NAD(P) binding site [chemical binding]; other site 246200006939 active site 246200006940 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 246200006941 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006942 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 246200006943 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 246200006944 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 246200006945 putative NAD(P) binding site [chemical binding]; other site 246200006946 catalytic Zn binding site [ion binding]; other site 246200006947 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 246200006948 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 246200006949 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 246200006950 shikimate binding site; other site 246200006951 NAD(P) binding site [chemical binding]; other site 246200006952 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 246200006953 EamA-like transporter family; Region: EamA; cl01037 246200006954 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 246200006955 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006956 NAD(P) binding site [chemical binding]; other site 246200006957 active site 246200006958 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 246200006959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006960 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 246200006961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006962 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 246200006963 SAF domain; Region: SAF; cl00555 246200006964 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 246200006965 Altronate dehydratase [Carbohydrate transport and metabolism]; Region: UxaA; COG2721 246200006966 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200006967 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200006968 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200006969 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200006970 Transcriptional regulators [Transcription]; Region: GntR; COG1802 246200006971 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200006972 DNA-binding site [nucleotide binding]; DNA binding site 246200006973 FCD domain; Region: FCD; cl11656 246200006974 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 246200006975 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 246200006976 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200006977 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006978 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200006979 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 246200006980 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200006981 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200006982 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 246200006983 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 246200006984 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200006985 DNA-binding site [nucleotide binding]; DNA binding site 246200006986 UTRA domain; Region: UTRA; cl01230 246200006987 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 246200006988 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 246200006989 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 246200006990 active site 246200006991 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 246200006992 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 246200006993 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 246200006994 dimer interface [polypeptide binding]; other site 246200006995 conserved gate region; other site 246200006996 putative PBP binding loops; other site 246200006997 ABC-ATPase subunit interface; other site 246200006998 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 246200006999 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200007000 Walker A/P-loop; other site 246200007001 ATP binding site [chemical binding]; other site 246200007002 Q-loop/lid; other site 246200007003 ABC transporter signature motif; other site 246200007004 Walker B; other site 246200007005 D-loop; other site 246200007006 H-loop/switch region; other site 246200007007 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 246200007008 active site 246200007009 multimer interface [polypeptide binding]; other site 246200007010 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 246200007011 putative substrate translocation pore; other site 246200007012 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 246200007013 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 246200007014 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200007015 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 246200007016 ABC transporter; Region: ABC_tran_2; pfam12848 246200007017 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 246200007018 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200007019 MarC family integral membrane protein; Region: MarC; cl00919 246200007020 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 246200007021 catalytic motif [active] 246200007022 Catalytic residue [active] 246200007023 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200007024 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 246200007025 putative acyl-acceptor binding pocket; other site 246200007026 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; cl01106 246200007027 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 246200007028 multifunctional aminopeptidase A; Provisional; Region: PRK00913 246200007029 interface (dimer of trimers) [polypeptide binding]; other site 246200007030 Substrate-binding/catalytic site; other site 246200007031 Zn-binding sites [ion binding]; other site 246200007032 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 246200007033 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 246200007034 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 246200007035 OstA-like protein; Region: OstA; cl00844 246200007036 Organic solvent tolerance protein; Region: OstA_C; pfam04453 246200007037 SurA N-terminal domain; Region: SurA_N; pfam09312 246200007038 PPIC-type PPIASE domain; Region: Rotamase; cl08278 246200007039 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 246200007040 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 246200007041 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; cl12011 246200007042 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 246200007043 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 246200007044 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 246200007045 S-adenosylmethionine binding site [chemical binding]; other site 246200007046 peptide chain release factor 1; Validated; Region: prfA; PRK00591 246200007047 RF-1 domain; Region: RF-1; cl02875 246200007048 RF-1 domain; Region: RF-1; cl02875 246200007049 Protein of unknown function (DUF1499); Region: DUF1499; cl01841 246200007050 Arginase family; Region: Arginase; cl00306 246200007051 Helix-turn-helix domains; Region: HTH; cl00088 246200007052 Helix-turn-helix domains; Region: HTH; cl00088 246200007053 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; cd06587 246200007054 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200007055 active site 246200007056 Arginase family; Region: Arginase; cl00306 246200007057 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 246200007058 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 246200007059 metal binding site [ion binding]; metal-binding site 246200007060 putative dimer interface [polypeptide binding]; other site 246200007061 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 246200007062 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 246200007063 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 246200007064 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 246200007065 active site 246200007066 tetramer interface [polypeptide binding]; other site 246200007067 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200007068 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E; Region: HAD-SF-IA-v1; TIGR01549 246200007069 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 246200007070 motif II; other site 246200007071 enolase; Provisional; Region: eno; PRK00077 246200007072 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 246200007073 dimer interface [polypeptide binding]; other site 246200007074 metal binding site [ion binding]; metal-binding site 246200007075 substrate binding pocket [chemical binding]; other site 246200007076 EamA-like transporter family; Region: EamA; cl01037 246200007077 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 246200007078 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 246200007079 metal binding site 2 [ion binding]; metal-binding site 246200007080 putative DNA binding helix; other site 246200007081 metal binding site 1 [ion binding]; metal-binding site 246200007082 dimer interface [polypeptide binding]; other site 246200007083 structural Zn2+ binding site [ion binding]; other site 246200007084 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 246200007085 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 246200007086 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 246200007087 EamA-like transporter family; Region: EamA; cl01037 246200007088 EamA-like transporter family; Region: EamA; cl01037 246200007089 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 246200007090 Uncharacterised protein family (UPF0075); Region: UPF0075; cl04217 246200007091 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 246200007092 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 246200007093 active site 246200007094 HIGH motif; other site 246200007095 dimer interface [polypeptide binding]; other site 246200007096 KMSKS motif; other site 246200007097 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 246200007098 RNA binding surface [nucleotide binding]; other site 246200007099 FemAB family; Region: FemAB; cl11444 246200007100 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 246200007101 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 246200007102 NAD binding site [chemical binding]; other site 246200007103 homotetramer interface [polypeptide binding]; other site 246200007104 homodimer interface [polypeptide binding]; other site 246200007105 active site 246200007106 ABC transporter ATPase component; Reviewed; Region: PRK11147 246200007107 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 246200007108 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200007109 Walker A/P-loop; other site 246200007110 ATP binding site [chemical binding]; other site 246200007111 Q-loop/lid; other site 246200007112 ABC transporter signature motif; other site 246200007113 Walker B; other site 246200007114 D-loop; other site 246200007115 H-loop/switch region; other site 246200007116 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200007117 SmpA / OmlA family; Region: SmpA_OmlA; cl01095 246200007118 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 246200007119 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 246200007120 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 246200007121 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 246200007122 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 246200007123 dimer interface [polypeptide binding]; other site 246200007124 active site 246200007125 CoA binding pocket [chemical binding]; other site 246200007126 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 246200007127 IHF dimer interface [polypeptide binding]; other site 246200007128 IHF - DNA interface [nucleotide binding]; other site 246200007129 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 246200007130 DNA binding residues [nucleotide binding] 246200007131 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 246200007132 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 246200007133 trimer interface [polypeptide binding]; other site 246200007134 active site 246200007135 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 246200007136 trimer interface [polypeptide binding]; other site 246200007137 active site 246200007138 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 246200007139 ScpA/B protein; Region: ScpA_ScpB; cl00598 246200007140 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 246200007141 Sporulation related domain; Region: SPOR; cl10051 246200007142 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 246200007143 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 246200007144 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 246200007145 active site 246200007146 HIGH motif; other site 246200007147 KMSK motif region; other site 246200007148 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 246200007149 tRNA binding surface [nucleotide binding]; other site 246200007150 anticodon binding site; other site 246200007151 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 246200007152 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 246200007153 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 246200007154 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 246200007155 putative phosphate binding site [ion binding]; other site 246200007156 putative catalytic site [active] 246200007157 active site 246200007158 metal binding site A [ion binding]; metal-binding site 246200007159 DNA binding site [nucleotide binding] 246200007160 putative AP binding site [nucleotide binding]; other site 246200007161 putative metal binding site B [ion binding]; other site 246200007162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200007163 salicylate hydroxylase; Provisional; Region: PRK06475 246200007164 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 246200007165 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 246200007166 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 246200007167 Walker A motif; other site 246200007168 ATP binding site [chemical binding]; other site 246200007169 Walker B motif; other site 246200007170 arginine finger; other site 246200007171 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 246200007172 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 246200007173 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 246200007174 Peptidase family M48; Region: Peptidase_M48; cl12018 246200007175 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 246200007176 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 246200007177 PUA domain; Region: PUA; cl00607 246200007178 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 246200007179 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 246200007180 metal binding triad; other site 246200007181 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 246200007182 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 246200007183 metal binding triad; other site 246200007184 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 246200007185 putative deacylase active site [active] 246200007186 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 246200007187 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 246200007188 AMP-binding domain protein; Validated; Region: PRK08315 246200007189 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200007190 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 246200007191 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 246200007192 active site 246200007193 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 246200007194 TM-ABC transporter signature motif; other site 246200007195 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 246200007196 TM-ABC transporter signature motif; other site 246200007197 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200007198 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 246200007199 Walker A/P-loop; other site 246200007200 ATP binding site [chemical binding]; other site 246200007201 Q-loop/lid; other site 246200007202 ABC transporter signature motif; other site 246200007203 Walker B; other site 246200007204 D-loop; other site 246200007205 H-loop/switch region; other site 246200007206 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200007207 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 246200007208 Walker A/P-loop; other site 246200007209 ATP binding site [chemical binding]; other site 246200007210 Q-loop/lid; other site 246200007211 ABC transporter signature motif; other site 246200007212 Walker B; other site 246200007213 D-loop; other site 246200007214 H-loop/switch region; other site 246200007215 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 246200007216 ligand binding site [chemical binding]; other site 246200007217 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 246200007218 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 246200007219 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 246200007220 DNA binding residues [nucleotide binding] 246200007221 dimerization interface [polypeptide binding]; other site 246200007222 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200007223 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 246200007224 FAD binding site [chemical binding]; other site 246200007225 substrate binding site [chemical binding]; other site 246200007226 catalytic base [active] 246200007227 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 246200007228 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200007229 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 246200007230 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 246200007231 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 246200007232 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 246200007233 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 246200007234 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; cl14780 246200007235 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 246200007236 carboxyltransferase (CT) interaction site; other site 246200007237 biotinylation site [posttranslational modification]; other site 246200007238 Transcriptional regulators [Transcription]; Region: GntR; COG1802 246200007239 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200007240 DNA-binding site [nucleotide binding]; DNA binding site 246200007241 FCD domain; Region: FCD; cl11656 246200007242 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 246200007243 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 246200007244 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200007245 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200007246 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200007247 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 246200007248 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 246200007249 NAD(P) binding site [chemical binding]; other site 246200007250 Predicted aminoglycoside phosphotransferase [General function prediction only]; Region: COG3173 246200007251 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 246200007252 putative active site [active] 246200007253 putative substrate binding site [chemical binding]; other site 246200007254 ATP binding site [chemical binding]; other site 246200007255 Transcriptional regulators [Transcription]; Region: FadR; COG2186 246200007256 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200007257 DNA-binding site [nucleotide binding]; DNA binding site 246200007258 FCD domain; Region: FCD; cl11656 246200007259 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 246200007260 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 246200007261 Walker A/P-loop; other site 246200007262 ATP binding site [chemical binding]; other site 246200007263 Q-loop/lid; other site 246200007264 ABC transporter signature motif; other site 246200007265 Walker B; other site 246200007266 D-loop; other site 246200007267 H-loop/switch region; other site 246200007268 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200007269 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 246200007270 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 246200007271 dimer interface [polypeptide binding]; other site 246200007272 conserved gate region; other site 246200007273 putative PBP binding loops; other site 246200007274 ABC-ATPase subunit interface; other site 246200007275 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 246200007276 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 246200007277 Walker A/P-loop; other site 246200007278 ATP binding site [chemical binding]; other site 246200007279 Q-loop/lid; other site 246200007280 ABC transporter signature motif; other site 246200007281 Walker B; other site 246200007282 D-loop; other site 246200007283 H-loop/switch region; other site 246200007284 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200007285 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200007286 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 246200007287 dimer interface [polypeptide binding]; other site 246200007288 conserved gate region; other site 246200007289 putative PBP binding loops; other site 246200007290 ABC-ATPase subunit interface; other site 246200007291 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200007292 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 246200007293 peptide binding site [polypeptide binding]; other site 246200007294 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 246200007295 allantoate amidohydrolase; Reviewed; Region: PRK12890 246200007296 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 246200007297 active site 246200007298 metal binding site [ion binding]; metal-binding site 246200007299 dimer interface [polypeptide binding]; other site 246200007300 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 246200007301 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 246200007302 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200007303 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 246200007304 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 246200007305 intersubunit interface [polypeptide binding]; other site 246200007306 active site 246200007307 Zn2+ binding site [ion binding]; other site 246200007308 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 246200007309 GTPase RsgA; Reviewed; Region: PRK01889 246200007310 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs...; Region: YjeQ_engC; cd01854 246200007311 GTPase/OB domain interface [polypeptide binding]; other site 246200007312 GTPase/Zn-binding domain interface [polypeptide binding]; other site 246200007313 GTP/Mg2+ binding site [chemical binding]; other site 246200007314 G4 box; other site 246200007315 G5 box; other site 246200007316 G1 box; other site 246200007317 Switch I region; other site 246200007318 G2 box; other site 246200007319 G3 box; other site 246200007320 Switch II region; other site 246200007321 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 246200007322 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 246200007323 active site 246200007324 metal binding site [ion binding]; metal-binding site 246200007325 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 246200007326 RDD family; Region: RDD; cl00746 246200007327 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 246200007328 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 246200007329 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 246200007330 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200007331 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_16; cd07263 246200007332 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200007333 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200007334 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200007335 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200007336 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 246200007337 Cache domain; Region: Cache_2; cl07034 246200007338 Histidine kinase; Region: HisKA_3; pfam07730 246200007339 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 246200007340 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200007341 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 246200007342 active site 246200007343 phosphorylation site [posttranslational modification] 246200007344 intermolecular recognition site; other site 246200007345 dimerization interface [polypeptide binding]; other site 246200007346 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 246200007347 DNA binding residues [nucleotide binding] 246200007348 dimerization interface [polypeptide binding]; other site 246200007349 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200007350 Helix-turn-helix domains; Region: HTH; cl00088 246200007351 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 246200007352 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 246200007353 PYR/PP interface [polypeptide binding]; other site 246200007354 dimer interface [polypeptide binding]; other site 246200007355 TPP binding site [chemical binding]; other site 246200007356 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 246200007357 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 246200007358 TPP-binding site [chemical binding]; other site 246200007359 dimer interface [polypeptide binding]; other site 246200007360 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 246200007361 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 246200007362 putative valine binding site [chemical binding]; other site 246200007363 dimer interface [polypeptide binding]; other site 246200007364 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 246200007365 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 246200007366 non-specific DNA binding site [nucleotide binding]; other site 246200007367 sequence-specific DNA binding site [nucleotide binding]; other site 246200007368 salt bridge; other site 246200007369 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 246200007370 amidase; Provisional; Region: PRK07486 246200007371 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 246200007372 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200007373 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; cd06587 246200007374 active site 246200007375 metal binding site [ion binding]; metal-binding site 246200007376 peptide chain release factor 2; Validated; Region: prfB; PRK00578 246200007377 RF-1 domain; Region: RF-1; cl02875 246200007378 RF-1 domain; Region: RF-1; cl02875 246200007379 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; cl14780 246200007380 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 246200007381 Transglycosylase; Region: Transgly; cl07896 246200007382 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 246200007383 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 246200007384 active site 246200007385 metal binding site [ion binding]; metal-binding site 246200007386 aspartate aminotransferase; Provisional; Region: PRK05764 246200007387 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 246200007388 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200007389 homodimer interface [polypeptide binding]; other site 246200007390 catalytic residue [active] 246200007391 Peptidase family M48; Region: Peptidase_M48; cl12018 246200007392 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 246200007393 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 246200007394 TPR motif; other site 246200007395 binding surface 246200007396 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 246200007397 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 246200007398 catalytic residues [active] 246200007399 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 246200007400 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 246200007401 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694; cl15446 246200007402 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 246200007403 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 246200007404 substrate-cofactor binding pocket; other site 246200007405 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200007406 catalytic residue [active] 246200007407 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 246200007408 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 246200007409 metal binding site [ion binding]; metal-binding site 246200007410 putative dimer interface [polypeptide binding]; other site 246200007411 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 246200007412 Pirin-related protein [General function prediction only]; Region: COG1741 246200007413 Cupin domain; Region: Cupin_2; cl09118 246200007414 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 246200007415 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 246200007416 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 246200007417 putative active site [active] 246200007418 N-formylglutamate amidohydrolase; Region: FGase; cl01522 246200007419 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200007420 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200007421 DctM-like transporters; Region: DctM; pfam06808 246200007422 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200007423 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200007424 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 246200007425 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 246200007426 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 246200007427 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 246200007428 NAD(P) binding site [chemical binding]; other site 246200007429 catalytic residues [active] 246200007430 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 246200007431 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 246200007432 putative active site [active] 246200007433 metal binding site [ion binding]; metal-binding site 246200007434 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; cl00284 246200007435 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; cl00257 246200007436 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 246200007437 Found in ATP-dependent protease La (LON); Region: LON; smart00464 246200007438 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 246200007439 Walker A motif; other site 246200007440 ATP binding site [chemical binding]; other site 246200007441 Walker B motif; other site 246200007442 arginine finger; other site 246200007443 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 246200007444 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 246200007445 FMN binding site [chemical binding]; other site 246200007446 active site 246200007447 substrate binding site [chemical binding]; other site 246200007448 catalytic residue [active] 246200007449 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 246200007450 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 246200007451 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 246200007452 Domain of unknown function DUF59; Region: DUF59; cl00941 246200007453 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 246200007454 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 246200007455 substrate binding site [chemical binding]; other site 246200007456 dimer interface [polypeptide binding]; other site 246200007457 catalytic triad [active] 246200007458 putative acetyltransferase; Provisional; Region: PRK03624 246200007459 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 246200007460 Coenzyme A binding pocket [chemical binding]; other site 246200007461 LysE type translocator; Region: LysE; cl00565 246200007462 Helix-turn-helix domains; Region: HTH; cl00088 246200007463 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 246200007464 S-adenosylmethionine binding site [chemical binding]; other site 246200007465 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200007466 DctM-like transporters; Region: DctM; pfam06808 246200007467 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200007468 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200007469 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200007470 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 246200007471 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 246200007472 active site 246200007473 phosphorylation site [posttranslational modification] 246200007474 intermolecular recognition site; other site 246200007475 dimerization interface [polypeptide binding]; other site 246200007476 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200007477 Helix-turn-helix domains; Region: HTH; cl00088 246200007478 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 246200007479 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 246200007480 dimer interface [polypeptide binding]; other site 246200007481 phosphorylation site [posttranslational modification] 246200007482 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 246200007483 ATP binding site [chemical binding]; other site 246200007484 Mg2+ binding site [ion binding]; other site 246200007485 G-X-G motif; other site 246200007486 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200007487 Helix-turn-helix domains; Region: HTH; cl00088 246200007488 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 246200007489 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 246200007490 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 246200007491 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 246200007492 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 246200007493 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 246200007494 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 246200007495 Active Sites [active] 246200007496 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 246200007497 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 246200007498 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 246200007499 FAD binding pocket [chemical binding]; other site 246200007500 FAD binding motif [chemical binding]; other site 246200007501 phosphate binding motif [ion binding]; other site 246200007502 beta-alpha-beta structure motif; other site 246200007503 NAD binding pocket [chemical binding]; other site 246200007504 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 246200007505 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 246200007506 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 246200007507 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 246200007508 putative MPT binding site; other site 246200007509 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 246200007510 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 246200007511 YeeE/YedE family (DUF395); Region: DUF395; cl01018 246200007512 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 246200007513 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 246200007514 metal ion-dependent adhesion site (MIDAS); other site 246200007515 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 246200007516 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200007517 Walker A motif; other site 246200007518 ATP binding site [chemical binding]; other site 246200007519 Walker B motif; other site 246200007520 gas vesicle protein GvpN; Region: gas_vesic_GvpN; TIGR02640 246200007521 arginine finger; other site 246200007522 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 246200007523 Sulfotransferase family; Region: Sulfotransfer_3; cl14559 246200007524 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 246200007525 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; cl12011 246200007526 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 246200007527 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 246200007528 active site 246200007529 substrate binding pocket [chemical binding]; other site 246200007530 dimer interface [polypeptide binding]; other site 246200007531 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 246200007532 replicative DNA helicase; Provisional; Region: PRK09165 246200007533 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 246200007534 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 246200007535 Walker A motif; other site 246200007536 ATP binding site [chemical binding]; other site 246200007537 Walker B motif; other site 246200007538 DNA binding loops [nucleotide binding] 246200007539 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200007540 Helix-turn-helix domains; Region: HTH; cl00088 246200007541 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 246200007542 dimerization interface [polypeptide binding]; other site 246200007543 D-cysteine desulfhydrase; Validated; Region: PRK03910 246200007544 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 246200007545 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200007546 catalytic residue [active] 246200007547 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 246200007548 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 246200007549 substrate binding pocket [chemical binding]; other site 246200007550 membrane-bound complex binding site; other site 246200007551 hinge residues; other site 246200007552 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 246200007553 dimer interface [polypeptide binding]; other site 246200007554 conserved gate region; other site 246200007555 putative PBP binding loops; other site 246200007556 ABC-ATPase subunit interface; other site 246200007557 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 246200007558 dimer interface [polypeptide binding]; other site 246200007559 conserved gate region; other site 246200007560 putative PBP binding loops; other site 246200007561 ABC-ATPase subunit interface; other site 246200007562 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 246200007563 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 246200007564 Walker A/P-loop; other site 246200007565 ATP binding site [chemical binding]; other site 246200007566 Q-loop/lid; other site 246200007567 ABC transporter signature motif; other site 246200007568 Walker B; other site 246200007569 D-loop; other site 246200007570 H-loop/switch region; other site 246200007571 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200007572 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200007573 aspartate racemase; Region: asp_race; TIGR00035 246200007574 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 246200007575 Aspartase; Region: Aspartase; cd01357 246200007576 active sites [active] 246200007577 tetramer interface [polypeptide binding]; other site 246200007578 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 246200007579 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 246200007580 Walker A/P-loop; other site 246200007581 ATP binding site [chemical binding]; other site 246200007582 Q-loop/lid; other site 246200007583 ABC transporter signature motif; other site 246200007584 Walker B; other site 246200007585 D-loop; other site 246200007586 H-loop/switch region; other site 246200007587 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 246200007588 dimer interface [polypeptide binding]; other site 246200007589 conserved gate region; other site 246200007590 putative PBP binding loops; other site 246200007591 ABC-ATPase subunit interface; other site 246200007592 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 246200007593 dimer interface [polypeptide binding]; other site 246200007594 conserved gate region; other site 246200007595 putative PBP binding loops; other site 246200007596 ABC-ATPase subunit interface; other site 246200007597 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 246200007598 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 246200007599 substrate binding pocket [chemical binding]; other site 246200007600 membrane-bound complex binding site; other site 246200007601 hinge residues; other site 246200007602 cell density-dependent motility repressor; Provisional; Region: PRK10082 246200007603 Helix-turn-helix domains; Region: HTH; cl00088 246200007604 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 246200007605 dimerization interface [polypeptide binding]; other site 246200007606 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 246200007607 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 246200007608 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 246200007609 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 246200007610 active site 246200007611 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 246200007612 dimer interface [polypeptide binding]; other site 246200007613 substrate binding site [chemical binding]; other site 246200007614 catalytic residues [active] 246200007615 Domain of unknown function DUF140; Region: DUF140; cl00510 246200007616 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 246200007617 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 246200007618 Walker A/P-loop; other site 246200007619 ATP binding site [chemical binding]; other site 246200007620 Q-loop/lid; other site 246200007621 ABC transporter signature motif; other site 246200007622 Walker B; other site 246200007623 D-loop; other site 246200007624 H-loop/switch region; other site 246200007625 Paraquat-inducible protein A; Region: PqiA; pfam04403 246200007626 DNA repair protein RadA; Provisional; Region: PRK11823 246200007627 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 246200007628 Walker A motif/ATP binding site; other site 246200007629 ATP binding site [chemical binding]; other site 246200007630 Walker B motif; other site 246200007631 Colicin V production protein; Region: Colicin_V; cl00567 246200007632 Colicin V production protein; Region: Colicin_V; cl00567 246200007633 Hint domain; Region: Hint_2; pfam13403 246200007634 amidophosphoribosyltransferase; Provisional; Region: PRK09123 246200007635 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 246200007636 active site 246200007637 tetramer interface [polypeptide binding]; other site 246200007638 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 246200007639 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200007640 NAD(P) binding site [chemical binding]; other site 246200007641 active site 246200007642 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 246200007643 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200007644 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 246200007645 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 246200007646 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 246200007647 Predicted transcriptional regulator [Transcription]; Region: COG2378 246200007648 Helix-turn-helix domains; Region: HTH; cl00088 246200007649 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 246200007650 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 246200007651 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 246200007652 putative peptidoglycan binding site; other site 246200007653 Peptidase family M23; Region: Peptidase_M23; pfam01551 246200007654 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 246200007655 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; cl12011 246200007656 Survival protein SurE; Region: SurE; cl00448 246200007657 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 246200007658 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 246200007659 Walker A/P-loop; other site 246200007660 ATP binding site [chemical binding]; other site 246200007661 Q-loop/lid; other site 246200007662 ABC transporter signature motif; other site 246200007663 Walker B; other site 246200007664 D-loop; other site 246200007665 H-loop/switch region; other site 246200007666 TOBE domain; Region: TOBE_2; cl01440 246200007667 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 246200007668 S-adenosylmethionine binding site [chemical binding]; other site 246200007669 A new structural DNA glycosylase; Region: AlkD_like; cl11434 246200007670 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 246200007671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200007672 NAD(P) binding site [chemical binding]; other site 246200007673 active site 246200007674 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; cd00081 246200007675 thioester formation/cholesterol transfer; other site 246200007676 protein-splicing catalytic site; other site 246200007677 Cytochrome C'; Region: Cytochrom_C_2; cl01610 246200007678 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 246200007679 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 246200007680 G1 box; other site 246200007681 putative GEF interaction site [polypeptide binding]; other site 246200007682 GTP/Mg2+ binding site [chemical binding]; other site 246200007683 Switch I region; other site 246200007684 G2 box; other site 246200007685 G3 box; other site 246200007686 Switch II region; other site 246200007687 G4 box; other site 246200007688 G5 box; other site 246200007689 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 246200007690 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 246200007691 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 246200007692 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200007693 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200007694 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200007695 active site 246200007696 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 246200007697 dimer interface [polypeptide binding]; other site 246200007698 conserved gate region; other site 246200007699 putative PBP binding loops; other site 246200007700 ABC-ATPase subunit interface; other site 246200007701 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 246200007702 dimer interface [polypeptide binding]; other site 246200007703 conserved gate region; other site 246200007704 putative PBP binding loops; other site 246200007705 ABC-ATPase subunit interface; other site 246200007706 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 246200007707 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 246200007708 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 246200007709 Walker A/P-loop; other site 246200007710 ATP binding site [chemical binding]; other site 246200007711 Q-loop/lid; other site 246200007712 ABC transporter signature motif; other site 246200007713 Walker B; other site 246200007714 D-loop; other site 246200007715 H-loop/switch region; other site 246200007716 TOBE domain; Region: TOBE_2; cl01440 246200007717 Uncharacterized conserved protein [Function unknown]; Region: COG3246 246200007718 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 246200007719 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200007720 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 246200007721 conserved cys residue [active] 246200007722 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200007723 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 246200007724 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; cl12011 246200007725 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200007726 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 246200007727 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 246200007728 substrate binding site [chemical binding]; other site 246200007729 oxyanion hole (OAH) forming residues; other site 246200007730 trimer interface [polypeptide binding]; other site 246200007731 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 246200007732 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 246200007733 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200007734 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 246200007735 NAD(P) binding site [chemical binding]; other site 246200007736 catalytic residues [active] 246200007737 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 246200007738 homotrimer interaction site [polypeptide binding]; other site 246200007739 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 246200007740 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 246200007741 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 246200007742 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 246200007743 CoA-transferase family III; Region: CoA_transf_3; pfam02515 246200007744 Flavin Reductases; Region: FlaRed; cl00801 246200007745 Protein of unknown function (DUF1185); Region: DUF1185; pfam06684 246200007746 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12898 246200007747 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 246200007748 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cd05709 246200007749 active site 246200007750 putative substrate binding region [chemical binding]; other site 246200007751 GAF domain; Region: GAF; cl00853 246200007752 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 246200007753 SapC; Region: SapC; pfam07277 246200007754 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 246200007755 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 246200007756 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 246200007757 NlpC/P60 family; Region: NLPC_P60; cl11438 246200007758 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 246200007759 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 246200007760 HsdM N-terminal domain; Region: HsdM_N; pfam12161 246200007761 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 246200007762 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; cl12011 246200007763 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 246200007764 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 246200007765 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 246200007766 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200007767 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200007768 Protein of unknown function DUF45; Region: DUF45; cl00636 246200007769 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 246200007770 GIY-YIG motif/motif A; other site 246200007771 putative active site [active] 246200007772 putative metal binding site [ion binding]; other site 246200007773 Sporulation related domain; Region: SPOR; cl10051 246200007774 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 246200007775 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; cl06814 246200007776 thymidylate kinase; Validated; Region: tmk; PRK00698 246200007777 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 246200007778 TMP-binding site; other site 246200007779 ATP-binding site [chemical binding]; other site 246200007780 DNA polymerase III subunit delta'; Validated; Region: PRK07471 246200007781 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200007782 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 246200007783 active site 246200007784 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200007785 Membrane transport protein; Region: Mem_trans; cl09117 246200007786 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 246200007787 putative active site [active] 246200007788 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 246200007789 Heme NO binding associated; Region: HNOBA; pfam07701 246200007790 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 246200007791 metal binding site [ion binding]; metal-binding site 246200007792 active site 246200007793 I-site; other site 246200007794 Heme NO binding; Region: HNOB; cl15268 246200007795 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 246200007796 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 246200007797 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 246200007798 motif II; other site 246200007799 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 246200007800 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 246200007801 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 246200007802 active site 246200007803 phosphorylation site [posttranslational modification] 246200007804 intermolecular recognition site; other site 246200007805 dimerization interface [polypeptide binding]; other site 246200007806 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 246200007807 metal binding site [ion binding]; metal-binding site 246200007808 active site 246200007809 I-site; other site 246200007810 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 246200007811 RNA polymerase sigma factor; Provisional; Region: PRK12524 246200007812 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 246200007813 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 246200007814 DNA binding residues [nucleotide binding] 246200007815 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 246200007816 Ca2+ binding site [ion binding]; other site 246200007817 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl08302 246200007818 Protein of unknown function (DUF983); Region: DUF983; cl02211 246200007819 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 246200007820 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 246200007821 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200007822 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 246200007823 Bordetella pertussis Bvg accessory factor family; Region: Bvg_acc_factor; cl09130 246200007824 biotin--protein ligase; Provisional; Region: PRK08330 246200007825 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 246200007826 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 246200007827 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 246200007828 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 246200007829 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 246200007830 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 246200007831 hydrogenase 4 subunit D; Validated; Region: PRK06525 246200007832 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 246200007833 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 246200007834 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 246200007835 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 246200007836 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 246200007837 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 246200007838 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 246200007839 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 246200007840 4Fe-4S binding domain; Region: Fer4; cl02805 246200007841 4Fe-4S binding domain; Region: Fer4; cl02805 246200007842 NADH dehydrogenase; Region: NADHdh; cl00469 246200007843 NADH dehydrogenase subunit G; Validated; Region: PRK09130 246200007844 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 246200007845 catalytic loop [active] 246200007846 iron binding site [ion binding]; other site 246200007847 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 246200007848 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 246200007849 molybdopterin cofactor binding site; other site 246200007850 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 246200007851 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 246200007852 Respiratory-chain NADH dehydrogenase 51 Kd subunit; Region: Complex1_51K; pfam01512 246200007853 SLBB domain; Region: SLBB; pfam10531 246200007854 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 246200007855 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 246200007856 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 246200007857 putative dimer interface [polypeptide binding]; other site 246200007858 [2Fe-2S] cluster binding site [ion binding]; other site 246200007859 Uncharacterized conserved protein [Function unknown]; Region: COG3743 246200007860 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 246200007861 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 246200007862 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; cl00365 246200007863 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl00419 246200007864 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 246200007865 enoyl-CoA hydratase; Provisional; Region: PRK07468 246200007866 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 246200007867 substrate binding site [chemical binding]; other site 246200007868 oxyanion hole (OAH) forming residues; other site 246200007869 trimer interface [polypeptide binding]; other site 246200007870 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 246200007871 active site 246200007872 catalytic residues [active] 246200007873 metal binding site [ion binding]; metal-binding site 246200007874 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 246200007875 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 246200007876 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 246200007877 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 246200007878 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 246200007879 carboxyltransferase (CT) interaction site; other site 246200007880 biotinylation site [posttranslational modification]; other site 246200007881 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 246200007882 Catalytic site; other site 246200007883 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 246200007884 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 246200007885 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200007886 Surface antigen; Region: Surface_Ag_2; cl01155 246200007887 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 246200007888 isovaleryl-CoA dehydrogenase; Region: PLN02519 246200007889 substrate binding site [chemical binding]; other site 246200007890 FAD binding site [chemical binding]; other site 246200007891 catalytic base [active] 246200007892 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 246200007893 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 246200007894 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200007895 catalytic residue [active] 246200007896 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 246200007897 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 246200007898 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 246200007899 motif II; other site 246200007900 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 246200007901 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 246200007902 Substrate binding site; other site 246200007903 Mg++ binding site; other site 246200007904 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 246200007905 active site 246200007906 substrate binding site [chemical binding]; other site 246200007907 CoA binding site [chemical binding]; other site 246200007908 A new structural DNA glycosylase; Region: AlkD_like; cd06561 246200007909 active site 246200007910 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 246200007911 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 246200007912 FeS/SAM binding site; other site 246200007913 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 246200007914 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 246200007915 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 246200007916 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 246200007917 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 246200007918 putative ligand binding site [chemical binding]; other site 246200007919 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 246200007920 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200007921 Walker A/P-loop; other site 246200007922 ATP binding site [chemical binding]; other site 246200007923 Q-loop/lid; other site 246200007924 ABC transporter signature motif; other site 246200007925 Walker B; other site 246200007926 D-loop; other site 246200007927 H-loop/switch region; other site 246200007928 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 246200007929 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 246200007930 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 246200007931 TM-ABC transporter signature motif; other site 246200007932 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 246200007933 TM-ABC transporter signature motif; other site 246200007934 cytosine deaminase; Provisional; Region: PRK05985 246200007935 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 246200007936 active site 246200007937 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 246200007938 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 246200007939 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 246200007940 metal binding site [ion binding]; metal-binding site 246200007941 putative dimer interface [polypeptide binding]; other site 246200007942 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 246200007943 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 246200007944 metal binding site [ion binding]; metal-binding site 246200007945 putative dimer interface [polypeptide binding]; other site 246200007946 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 246200007947 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 246200007948 metal binding site [ion binding]; metal-binding site 246200007949 putative dimer interface [polypeptide binding]; other site 246200007950 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 246200007951 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 246200007952 metal binding site [ion binding]; metal-binding site 246200007953 putative dimer interface [polypeptide binding]; other site 246200007954 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 246200007955 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 246200007956 metal binding site [ion binding]; metal-binding site 246200007957 putative dimer interface [polypeptide binding]; other site 246200007958 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 246200007959 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 246200007960 Walker A/P-loop; other site 246200007961 ATP binding site [chemical binding]; other site 246200007962 Q-loop/lid; other site 246200007963 ABC transporter signature motif; other site 246200007964 Walker B; other site 246200007965 D-loop; other site 246200007966 H-loop/switch region; other site 246200007967 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200007968 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 246200007969 Walker A/P-loop; other site 246200007970 ATP binding site [chemical binding]; other site 246200007971 Q-loop/lid; other site 246200007972 ABC transporter signature motif; other site 246200007973 Walker B; other site 246200007974 D-loop; other site 246200007975 H-loop/switch region; other site 246200007976 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200007977 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200007978 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 246200007979 peptide binding site [polypeptide binding]; other site 246200007980 dimer interface [polypeptide binding]; other site 246200007981 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200007982 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 246200007983 dimer interface [polypeptide binding]; other site 246200007984 conserved gate region; other site 246200007985 putative PBP binding loops; other site 246200007986 ABC-ATPase subunit interface; other site 246200007987 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 246200007988 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 246200007989 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 246200007990 dimer interface [polypeptide binding]; other site 246200007991 conserved gate region; other site 246200007992 putative PBP binding loops; other site 246200007993 ABC-ATPase subunit interface; other site 246200007994 YeeE/YedE family (DUF395); Region: DUF395; cl01018 246200007995 Protein of unknown function (DUF3422); Region: DUF3422; cl02073 246200007996 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 246200007997 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 246200007998 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 246200007999 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 246200008000 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200008001 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 246200008002 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 246200008003 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200008004 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 246200008005 classical (c) SDRs; Region: SDR_c; cd05233 246200008006 NAD(P) binding site [chemical binding]; other site 246200008007 active site 246200008008 kynureninase; Region: kynureninase; TIGR01814 246200008009 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 246200008010 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200008011 catalytic residue [active] 246200008012 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200008013 Helix-turn-helix domains; Region: HTH; cl00088 246200008014 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 246200008015 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 246200008016 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 246200008017 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 246200008018 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 246200008019 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 246200008020 4-hydroxybenzoyl-CoA reductase, alpha subunit; Region: 4hydrxCoA_A; TIGR03194 246200008021 Hint domain; Region: Hint_2; pfam13403 246200008022 Peptidase family C69; Region: Peptidase_C69; cl01920 246200008023 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 246200008024 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 246200008025 active site 246200008026 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 246200008027 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 246200008028 Walker A/P-loop; other site 246200008029 ATP binding site [chemical binding]; other site 246200008030 Q-loop/lid; other site 246200008031 ABC transporter signature motif; other site 246200008032 Walker B; other site 246200008033 D-loop; other site 246200008034 H-loop/switch region; other site 246200008035 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200008036 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 246200008037 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 246200008038 Walker A/P-loop; other site 246200008039 ATP binding site [chemical binding]; other site 246200008040 Q-loop/lid; other site 246200008041 ABC transporter signature motif; other site 246200008042 Walker B; other site 246200008043 D-loop; other site 246200008044 H-loop/switch region; other site 246200008045 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200008046 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 246200008047 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 246200008048 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 246200008049 dimer interface [polypeptide binding]; other site 246200008050 conserved gate region; other site 246200008051 putative PBP binding loops; other site 246200008052 ABC-ATPase subunit interface; other site 246200008053 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200008054 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 246200008055 dimer interface [polypeptide binding]; other site 246200008056 conserved gate region; other site 246200008057 putative PBP binding loops; other site 246200008058 ABC-ATPase subunit interface; other site 246200008059 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; cl01709 246200008060 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 246200008061 Helix-turn-helix domains; Region: HTH; cl00088 246200008062 Peptidase C26; Region: Peptidase_C26; pfam07722 246200008063 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 246200008064 catalytic triad [active] 246200008065 Domain of unknown function (DUF336); Region: DUF336; cl01249 246200008066 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 246200008067 active site 246200008068 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 246200008069 metal binding site [ion binding]; metal-binding site 246200008070 active site 246200008071 I-site; other site 246200008072 aminopeptidase N; Provisional; Region: pepN; PRK14015 246200008073 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 246200008074 Zn binding site [ion binding]; other site 246200008075 classical (c) SDRs; Region: SDR_c; cd05233 246200008076 NAD(P) binding site [chemical binding]; other site 246200008077 active site 246200008078 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 246200008079 putative NAD(P) binding site [chemical binding]; other site 246200008080 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 246200008081 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 246200008082 GatB domain; Region: GatB_Yqey; cl11497 246200008083 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 246200008084 BolA-like protein; Region: BolA; cl00386 246200008085 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 246200008086 HSP70 interaction site [polypeptide binding]; other site 246200008087 Hint domain; Region: Hint_2; pfam13403 246200008088 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 246200008089 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 246200008090 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 246200008091 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 246200008092 Catalytic site; other site 246200008093 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 246200008094 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 246200008095 metal ion-dependent adhesion site (MIDAS); other site 246200008096 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 246200008097 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 246200008098 active site 246200008099 Domain of unknown function (DUF427); Region: DUF427; cl00998 246200008100 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 246200008101 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200008102 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200008103 Helix-turn-helix domains; Region: HTH; cl00088 246200008104 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 246200008105 dimerization interface [polypeptide binding]; other site 246200008106 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 246200008107 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 246200008108 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200008109 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 246200008110 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 246200008111 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 246200008112 precorrin-3B synthase; Region: CobG; TIGR02435 246200008113 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 246200008114 Precorrin isomerase [Coenzyme metabolism]; Region: CobH; cl00913 246200008115 Precorrin-8X methylmutase; Region: CbiC; pfam02570 246200008116 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 246200008117 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 246200008118 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 246200008119 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 246200008120 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 246200008121 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; cl12011 246200008122 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 246200008123 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 246200008124 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 246200008125 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 246200008126 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 246200008127 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 246200008128 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 246200008129 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 246200008130 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 246200008131 Helix-turn-helix domains; Region: HTH; cl00088 246200008132 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 246200008133 putative dimerization interface [polypeptide binding]; other site 246200008134 L-aspartate dehydrogenase; Provisional; Region: PRK13303 246200008135 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200008136 Domain of unknown function DUF108; Region: DUF108; pfam01958 246200008137 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 246200008138 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 246200008139 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 246200008140 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 246200008141 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 246200008142 inhibitor site; inhibition site 246200008143 active site 246200008144 dimer interface [polypeptide binding]; other site 246200008145 catalytic residue [active] 246200008146 hypothetical protein; Validated; Region: PRK07586 246200008147 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 246200008148 PYR/PP interface [polypeptide binding]; other site 246200008149 dimer interface [polypeptide binding]; other site 246200008150 TPP binding site [chemical binding]; other site 246200008151 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 246200008152 TPP-binding site [chemical binding]; other site 246200008153 dimer interface [polypeptide binding]; other site 246200008154 Domain of unknown function DUF302; Region: DUF302; cl01364 246200008155 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 246200008156 acetolactate synthase, catabolic; Region: acolac_catab; TIGR02418 246200008157 PYR/PP interface [polypeptide binding]; other site 246200008158 dimer interface [polypeptide binding]; other site 246200008159 TPP binding site [chemical binding]; other site 246200008160 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 246200008161 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 246200008162 TPP-binding site [chemical binding]; other site 246200008163 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 246200008164 CoA-transferase family III; Region: CoA_transf_3; pfam02515 246200008165 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 246200008166 OpgC protein; Region: OpgC_C; cl00792 246200008167 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 246200008168 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 246200008169 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 246200008170 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 246200008171 active site 246200008172 Predicted esterase [General function prediction only]; Region: COG0400 246200008173 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 246200008174 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 246200008175 active site residue [active] 246200008176 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 246200008177 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 246200008178 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 246200008179 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 246200008180 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 246200008181 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 246200008182 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 246200008183 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 246200008184 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 246200008185 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 246200008186 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 246200008187 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 246200008188 dimerization interface [polypeptide binding]; other site 246200008189 putative ATP binding site [chemical binding]; other site 246200008190 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 246200008191 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 246200008192 active site residue [active] 246200008193 Uncharacterised ACR, COG2135; Region: DUF159; cl03646 246200008194 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200008195 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 246200008196 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 246200008197 N-terminal domain interface [polypeptide binding]; other site 246200008198 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 246200008199 TPR motif; other site 246200008200 binding surface 246200008201 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 246200008202 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 246200008203 TPR motif; other site 246200008204 binding surface 246200008205 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 246200008206 sulfotransferase; Region: PLN02164 246200008207 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 246200008208 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 246200008209 active site 246200008210 metal binding site [ion binding]; metal-binding site 246200008211 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 246200008212 Protein of unknown function (DUF952); Region: DUF952; cl01393 246200008213 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 246200008214 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 246200008215 quinone interaction residues [chemical binding]; other site 246200008216 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 246200008217 active site 246200008218 catalytic residues [active] 246200008219 FMN binding site [chemical binding]; other site 246200008220 substrate binding site [chemical binding]; other site 246200008221 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 246200008222 ArsC family; Region: ArsC; pfam03960 246200008223 catalytic residues [active] 246200008224 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 246200008225 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 246200008226 CoenzymeA binding site [chemical binding]; other site 246200008227 subunit interaction site [polypeptide binding]; other site 246200008228 PHB binding site; other site 246200008229 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 246200008230 CoenzymeA binding site [chemical binding]; other site 246200008231 subunit interaction site [polypeptide binding]; other site 246200008232 PHB binding site; other site 246200008233 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 246200008234 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 246200008235 DNA binding residues [nucleotide binding] 246200008236 putative dimer interface [polypeptide binding]; other site 246200008237 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 246200008238 DNA binding residues [nucleotide binding] 246200008239 putative dimer interface [polypeptide binding]; other site 246200008240 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 246200008241 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 246200008242 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 246200008243 FAD binding site [chemical binding]; other site 246200008244 substrate binding site [chemical binding]; other site 246200008245 catalytic residues [active] 246200008246 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 246200008247 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200008248 GST_N family, unknown subfamily 4; 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_4; cd03056 246200008249 putative C-terminal domain interface [polypeptide binding]; other site 246200008250 putative GSH binding site (G-site) [chemical binding]; other site 246200008251 putative dimer interface [polypeptide binding]; other site 246200008252 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 246200008253 N-terminal domain interface [polypeptide binding]; other site 246200008254 dimer interface [polypeptide binding]; other site 246200008255 substrate binding pocket (H-site) [chemical binding]; other site 246200008256 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 246200008257 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 246200008258 dimer interface [polypeptide binding]; other site 246200008259 active site 246200008260 Cupin domain; Region: Cupin_2; cl09118 246200008261 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 246200008262 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 246200008263 substrate binding site [chemical binding]; other site 246200008264 oxyanion hole (OAH) forming residues; other site 246200008265 trimer interface [polypeptide binding]; other site 246200008266 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; cl12011 246200008267 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200008268 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200008269 Hint domain; Region: Hint_2; pfam13403 246200008270 Sulfotransferase family; Region: Sulfotransfer_2; cl12149 246200008271 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 246200008272 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 246200008273 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 246200008274 active site 246200008275 Sulfatase; Region: Sulfatase; cl10460 246200008276 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 246200008277 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 246200008278 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 246200008279 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 246200008280 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 246200008281 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 246200008282 active site 246200008283 catalytic motif [active] 246200008284 Zn binding site [ion binding]; other site 246200008285 Cupin domain; Region: Cupin_2; cl09118 246200008286 Cupin domain; Region: Cupin_2; cl09118 246200008287 malic enzyme; Reviewed; Region: PRK12862 246200008288 Malic enzyme, N-terminal domain; Region: malic; pfam00390 246200008289 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 246200008290 putative NAD(P) binding site [chemical binding]; other site 246200008291 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 246200008292 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 246200008293 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 246200008294 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 246200008295 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200008296 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 246200008297 Cu(I) binding site [ion binding]; other site 246200008298 amidase; Provisional; Region: PRK07487 246200008299 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 246200008300 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 246200008301 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 246200008302 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 246200008303 dimer interface [polypeptide binding]; other site 246200008304 glycine-pyridoxal phosphate binding site [chemical binding]; other site 246200008305 active site 246200008306 folate binding site [chemical binding]; other site 246200008307 Protein of unknown function (DUF817); Region: DUF817; cl01520 246200008308 acyl-CoA esterase; Provisional; Region: PRK10673 246200008309 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 246200008310 active site 246200008311 catalytic residue [active] 246200008312 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 246200008313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200008314 Cupin domain; Region: Cupin_2; cl09118 246200008315 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200008316 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 246200008317 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 246200008318 homotrimer interaction site [polypeptide binding]; other site 246200008319 putative active site [active] 246200008320 Domain of unknown function (DUF477); Region: DUF477; cl01535 246200008321 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 246200008322 META domain; Region: META; cl01245 246200008323 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 246200008324 transmembrane helices; other site 246200008325 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 246200008326 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 246200008327 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 246200008328 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 246200008329 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 246200008330 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 246200008331 putative active site [active] 246200008332 metal binding site [ion binding]; metal-binding site 246200008333 homodimer binding site [polypeptide binding]; other site 246200008334 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 246200008335 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 246200008336 MgtE intracellular N domain; Region: MgtE_N; cl15244 246200008337 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 246200008338 Divalent cation transporter; Region: MgtE; cl00786 246200008339 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 246200008340 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 246200008341 active site 246200008342 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 246200008343 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 246200008344 active site 246200008345 putative substrate binding pocket [chemical binding]; other site 246200008346 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 246200008347 active site 246200008348 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 246200008349 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 246200008350 non-specific DNA binding site [nucleotide binding]; other site 246200008351 salt bridge; other site 246200008352 sequence-specific DNA binding site [nucleotide binding]; other site 246200008353 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 246200008354 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 246200008355 NAD(P) binding site [chemical binding]; other site 246200008356 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200008357 Helix-turn-helix domains; Region: HTH; cl00088 246200008358 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 246200008359 dimerization interface [polypeptide binding]; other site 246200008360 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 246200008361 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 246200008362 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 246200008363 amidase catalytic site [active] 246200008364 Zn binding residues [ion binding]; other site 246200008365 substrate binding site [chemical binding]; other site 246200008366 Excalibur calcium-binding domain; Region: Excalibur; cl05460 246200008367 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 246200008368 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 246200008369 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 246200008370 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 246200008371 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200008372 putative substrate translocation pore; other site 246200008373 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 246200008374 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 246200008375 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200008376 cyclase homology domain; Region: CHD; cd07302 246200008377 nucleotidyl binding site; other site 246200008378 metal binding site [ion binding]; metal-binding site 246200008379 dimer interface [polypeptide binding]; other site 246200008380 cyclase homology domain; Region: CHD; cd07302 246200008381 nucleotidyl binding site; other site 246200008382 metal binding site [ion binding]; metal-binding site 246200008383 dimer interface [polypeptide binding]; other site 246200008384 agmatine deiminase; Region: agmatine_aguA; TIGR03380 246200008385 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 246200008386 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 246200008387 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200008388 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 246200008389 homodimer interaction site [polypeptide binding]; other site 246200008390 cofactor binding site; other site 246200008391 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 246200008392 nucleoside/Zn binding site; other site 246200008393 dimer interface [polypeptide binding]; other site 246200008394 catalytic motif [active] 246200008395 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 246200008396 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 246200008397 RNA binding surface [nucleotide binding]; other site 246200008398 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 246200008399 active site 246200008400 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 246200008401 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 246200008402 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 246200008403 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 246200008404 adenylate kinase; Reviewed; Region: adk; PRK00279 246200008405 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 246200008406 putative FMN binding site [chemical binding]; other site 246200008407 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 246200008408 putative active site [active] 246200008409 dimerization interface [polypeptide binding]; other site 246200008410 putative tRNAtyr binding site [nucleotide binding]; other site 246200008411 MOFRL family; Region: MOFRL; cl01013 246200008412 MOFRL family; Region: MOFRL; cl01013 246200008413 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 246200008414 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 246200008415 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 246200008416 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200008417 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_17; cd08503 246200008418 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200008419 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 246200008420 dimer interface [polypeptide binding]; other site 246200008421 conserved gate region; other site 246200008422 ABC-ATPase subunit interface; other site 246200008423 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 246200008424 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 246200008425 dimer interface [polypeptide binding]; other site 246200008426 conserved gate region; other site 246200008427 putative PBP binding loops; other site 246200008428 ABC-ATPase subunit interface; other site 246200008429 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 246200008430 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 246200008431 Walker A/P-loop; other site 246200008432 ATP binding site [chemical binding]; other site 246200008433 Q-loop/lid; other site 246200008434 ABC transporter signature motif; other site 246200008435 Walker B; other site 246200008436 D-loop; other site 246200008437 H-loop/switch region; other site 246200008438 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 246200008439 Walker A/P-loop; other site 246200008440 ATP binding site [chemical binding]; other site 246200008441 Q-loop/lid; other site 246200008442 ABC transporter signature motif; other site 246200008443 Walker B; other site 246200008444 D-loop; other site 246200008445 H-loop/switch region; other site 246200008446 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200008447 Sulfatase; Region: Sulfatase; cl10460 246200008448 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 246200008449 AMP-binding domain protein; Validated; Region: PRK07529 246200008450 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200008451 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 246200008452 BON domain; Region: BON; cl02771 246200008453 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cd00118 246200008454 putative peptidoglycan binding site; other site 246200008455 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 246200008456 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 246200008457 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200008458 Walker A/P-loop; other site 246200008459 ATP binding site [chemical binding]; other site 246200008460 Q-loop/lid; other site 246200008461 ABC transporter signature motif; other site 246200008462 Walker B; other site 246200008463 D-loop; other site 246200008464 H-loop/switch region; other site 246200008465 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 246200008466 TPR motif; other site 246200008467 binding surface 246200008468 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 246200008469 Helix-turn-helix domains; Region: HTH; cl00088 246200008470 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 246200008471 Proline dehydrogenase; Region: Pro_dh; cl03282 246200008472 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 246200008473 Glutamate binding site [chemical binding]; other site 246200008474 NAD binding site [chemical binding]; other site 246200008475 catalytic residues [active] 246200008476 Rhomboid family; Region: Rhomboid; cl11446 246200008477 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 246200008478 active site 246200008479 dimerization interface [polypeptide binding]; other site 246200008480 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 246200008481 Prostaglandin dehydrogenases; Region: PGDH; cd05288 246200008482 NAD(P) binding site [chemical binding]; other site 246200008483 substrate binding site [chemical binding]; other site 246200008484 dimer interface [polypeptide binding]; other site 246200008485 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 246200008486 Helix-turn-helix domains; Region: HTH; cl00088 246200008487 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 246200008488 putative dimerization interface [polypeptide binding]; other site 246200008489 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 246200008490 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 246200008491 FAD binding site [chemical binding]; other site 246200008492 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 246200008493 CoenzymeA binding site [chemical binding]; other site 246200008494 subunit interaction site [polypeptide binding]; other site 246200008495 PHB binding site; other site 246200008496 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 246200008497 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 246200008498 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 246200008499 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 246200008500 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 246200008501 Helix-turn-helix domains; Region: HTH; cl00088 246200008502 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 246200008503 dimerization interface [polypeptide binding]; other site 246200008504 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 246200008505 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 246200008506 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 246200008507 active site 246200008508 HIGH motif; other site 246200008509 nucleotide binding site [chemical binding]; other site 246200008510 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 246200008511 active site 246200008512 KMSKS motif; other site 246200008513 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 246200008514 tRNA binding surface [nucleotide binding]; other site 246200008515 anticodon binding site; other site 246200008516 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 246200008517 cyclase homology domain; Region: CHD; cd07302 246200008518 nucleotidyl binding site; other site 246200008519 metal binding site [ion binding]; metal-binding site 246200008520 dimer interface [polypeptide binding]; other site 246200008521 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200008522 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 246200008523 enoyl-CoA hydratase; Provisional; Region: PRK07509 246200008524 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 246200008525 substrate binding site [chemical binding]; other site 246200008526 oxyanion hole (OAH) forming residues; other site 246200008527 trimer interface [polypeptide binding]; other site 246200008528 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 246200008529 Strictosidine synthase; Region: Str_synth; pfam03088 246200008530 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 246200008531 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 246200008532 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200008533 homodimer interface [polypeptide binding]; other site 246200008534 catalytic residue [active] 246200008535 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 246200008536 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 246200008537 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200008538 catalytic residue [active] 246200008539 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 246200008540 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 246200008541 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 246200008542 Walker A/P-loop; other site 246200008543 ATP binding site [chemical binding]; other site 246200008544 Q-loop/lid; other site 246200008545 ABC transporter signature motif; other site 246200008546 Walker B; other site 246200008547 D-loop; other site 246200008548 H-loop/switch region; other site 246200008549 Entner-Doudoroff aldolase; Region: eda; TIGR01182 246200008550 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 246200008551 active site 246200008552 intersubunit interface [polypeptide binding]; other site 246200008553 catalytic residue [active] 246200008554 Dehydratase family; Region: ILVD_EDD; cl00340 246200008555 6-phosphogluconate dehydratase; Region: edd; TIGR01196 246200008556 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 246200008557 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 246200008558 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 246200008559 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 246200008560 GAF domain; Region: GAF; cl00853 246200008561 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 246200008562 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 246200008563 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 246200008564 aspartate kinase; Reviewed; Region: PRK06635 246200008565 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 246200008566 putative nucleotide binding site [chemical binding]; other site 246200008567 putative catalytic residues [active] 246200008568 putative Mg ion binding site [ion binding]; other site 246200008569 putative aspartate binding site [chemical binding]; other site 246200008570 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 246200008571 putative allosteric regulatory site; other site 246200008572 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 246200008573 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 246200008574 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200008575 Helix-turn-helix domains; Region: HTH; cl00088 246200008576 Response regulator receiver domain; Region: Response_reg; pfam00072 246200008577 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 246200008578 active site 246200008579 phosphorylation site [posttranslational modification] 246200008580 intermolecular recognition site; other site 246200008581 dimerization interface [polypeptide binding]; other site 246200008582 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 246200008583 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 246200008584 dimer interface [polypeptide binding]; other site 246200008585 phosphorylation site [posttranslational modification] 246200008586 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 246200008587 ATP binding site [chemical binding]; other site 246200008588 Mg2+ binding site [ion binding]; other site 246200008589 G-X-G motif; other site 246200008590 Response regulator receiver domain; Region: Response_reg; pfam00072 246200008591 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 246200008592 active site 246200008593 phosphorylation site [posttranslational modification] 246200008594 intermolecular recognition site; other site 246200008595 dimerization interface [polypeptide binding]; other site 246200008596 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 246200008597 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 246200008598 substrate binding pocket [chemical binding]; other site 246200008599 membrane-bound complex binding site; other site 246200008600 hinge residues; other site 246200008601 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 246200008602 substrate binding pocket [chemical binding]; other site 246200008603 membrane-bound complex binding site; other site 246200008604 hinge residues; other site 246200008605 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 246200008606 dimer interface [polypeptide binding]; other site 246200008607 conserved gate region; other site 246200008608 putative PBP binding loops; other site 246200008609 ABC-ATPase subunit interface; other site 246200008610 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 246200008611 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 246200008612 dimer interface [polypeptide binding]; other site 246200008613 conserved gate region; other site 246200008614 putative PBP binding loops; other site 246200008615 ABC-ATPase subunit interface; other site 246200008616 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 246200008617 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 246200008618 Walker A/P-loop; other site 246200008619 ATP binding site [chemical binding]; other site 246200008620 Q-loop/lid; other site 246200008621 ABC transporter signature motif; other site 246200008622 Walker B; other site 246200008623 D-loop; other site 246200008624 H-loop/switch region; other site 246200008625 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200008626 Helix-turn-helix domains; Region: HTH; cl00088 246200008627 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 246200008628 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 246200008629 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 246200008630 catalytic triad [active] 246200008631 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 246200008632 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 246200008633 Walker A/P-loop; other site 246200008634 ATP binding site [chemical binding]; other site 246200008635 Q-loop/lid; other site 246200008636 ABC transporter signature motif; other site 246200008637 Walker B; other site 246200008638 D-loop; other site 246200008639 H-loop/switch region; other site 246200008640 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200008641 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 246200008642 Walker A/P-loop; other site 246200008643 ATP binding site [chemical binding]; other site 246200008644 Q-loop/lid; other site 246200008645 ABC transporter signature motif; other site 246200008646 Walker B; other site 246200008647 D-loop; other site 246200008648 H-loop/switch region; other site 246200008649 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200008650 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 246200008651 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 246200008652 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 246200008653 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200008654 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 246200008655 dimer interface [polypeptide binding]; other site 246200008656 conserved gate region; other site 246200008657 putative PBP binding loops; other site 246200008658 ABC-ATPase subunit interface; other site 246200008659 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200008660 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_17; cd08503 246200008661 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 246200008662 NADP binding site [chemical binding]; other site 246200008663 homodimer interface [polypeptide binding]; other site 246200008664 active site 246200008665 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 246200008666 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_9; cd04666 246200008667 nudix motif; other site 246200008668 EcsC protein family; Region: EcsC; pfam12787 246200008669 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 246200008670 Coenzyme A binding pocket [chemical binding]; other site 246200008671 Flavin Reductases; Region: FlaRed; cl00801 246200008672 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 246200008673 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 246200008674 trimer interface [polypeptide binding]; other site 246200008675 active site 246200008676 substrate binding site [chemical binding]; other site 246200008677 CoA binding site [chemical binding]; other site 246200008678 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 246200008679 Permease family; Region: Xan_ur_permease; cl00967 246200008680 Permease family; Region: Xan_ur_permease; cl00967 246200008681 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 246200008682 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 246200008683 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 246200008684 LysE type translocator; Region: LysE; cl00565 246200008685 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 246200008686 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 246200008687 FAD binding domain; Region: FAD_binding_4; pfam01565 246200008688 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200008689 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 246200008690 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200008691 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 246200008692 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 246200008693 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 246200008694 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 246200008695 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 246200008696 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200008697 catalytic residue [active] 246200008698 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 246200008699 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 246200008700 Subunit III/VIIa interface [polypeptide binding]; other site 246200008701 Phospholipid binding site [chemical binding]; other site 246200008702 Subunit I/III interface [polypeptide binding]; other site 246200008703 Subunit III/VIb interface [polypeptide binding]; other site 246200008704 Subunit III/VIa interface; other site 246200008705 Subunit III/Vb interface [polypeptide binding]; other site 246200008706 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 246200008707 UbiA prenyltransferase family; Region: UbiA; cl00337 246200008708 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 246200008709 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 246200008710 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 246200008711 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 246200008712 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 246200008713 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 246200008714 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 246200008715 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 246200008716 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 246200008717 active site 246200008718 interdomain interaction site; other site 246200008719 putative metal-binding site [ion binding]; other site 246200008720 nucleotide binding site [chemical binding]; other site 246200008721 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 246200008722 domain I; other site 246200008723 DNA binding groove [nucleotide binding] 246200008724 phosphate binding site [ion binding]; other site 246200008725 domain II; other site 246200008726 domain III; other site 246200008727 nucleotide binding site [chemical binding]; other site 246200008728 catalytic site [active] 246200008729 domain IV; other site 246200008730 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 246200008731 Helix-turn-helix domains; Region: HTH; cl00088 246200008732 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_22; cd08359 246200008733 putative dimer interface [polypeptide binding]; other site 246200008734 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200008735 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 246200008736 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 246200008737 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 246200008738 N-acetyl-D-glucosamine binding site [chemical binding]; other site 246200008739 catalytic residue [active] 246200008740 SAF domain; Region: SAF; cl00555 246200008741 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 246200008742 BON domain; Region: BON; cl02771 246200008743 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 246200008744 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 246200008745 ligand binding site [chemical binding]; other site 246200008746 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 246200008747 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 246200008748 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 246200008749 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 246200008750 ATP binding site [chemical binding]; other site 246200008751 Walker A motif; other site 246200008752 hexamer interface [polypeptide binding]; other site 246200008753 Walker B motif; other site 246200008754 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 246200008755 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 246200008756 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 246200008757 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 246200008758 binding surface 246200008759 TPR motif; other site 246200008760 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 246200008761 TPR motif; other site 246200008762 binding surface 246200008763 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 246200008764 binding surface 246200008765 TPR motif; other site 246200008766 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 246200008767 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200008768 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 246200008769 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 246200008770 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 246200008771 ATP binding site [chemical binding]; other site 246200008772 putative Mg++ binding site [ion binding]; other site 246200008773 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 246200008774 nucleotide binding region [chemical binding]; other site 246200008775 ATP-binding site [chemical binding]; other site 246200008776 DEAD/H associated; Region: DEAD_assoc; pfam08494 246200008777 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 246200008778 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 246200008779 active site 246200008780 metal binding site [ion binding]; metal-binding site 246200008781 LytTr DNA-binding domain; Region: LytTR; cl04498 246200008782 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 246200008783 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 246200008784 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 246200008785 homodimer interface [polypeptide binding]; other site 246200008786 NADP binding site [chemical binding]; other site 246200008787 substrate binding site [chemical binding]; other site 246200008788 Chorismate mutase type II; Region: CM_2; cl00693 246200008789 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 246200008790 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 246200008791 Potassium binding sites [ion binding]; other site 246200008792 Cesium cation binding sites [ion binding]; other site 246200008793 MOSC domain; Region: MOSC; pfam03473 246200008794 FtsH Extracellular; Region: FtsH_ext; pfam06480 246200008795 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 246200008796 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 246200008797 Walker A motif; other site 246200008798 ATP binding site [chemical binding]; other site 246200008799 Walker B motif; other site 246200008800 arginine finger; other site 246200008801 Peptidase family M41; Region: Peptidase_M41; pfam01434 246200008802 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 246200008803 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 246200008804 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 246200008805 ligand binding site [chemical binding]; other site 246200008806 translocation protein TolB; Provisional; Region: tolB; PRK05137 246200008807 TolB amino-terminal domain; Region: TolB_N; cl00639 246200008808 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 246200008809 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 246200008810 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 246200008811 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 246200008812 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 246200008813 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 246200008814 active site 246200008815 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 246200008816 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 246200008817 Walker A motif; other site 246200008818 ATP binding site [chemical binding]; other site 246200008819 Walker B motif; other site 246200008820 arginine finger; other site 246200008821 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 246200008822 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 246200008823 RuvA N terminal domain; Region: RuvA_N; pfam01330 246200008824 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 246200008825 active site 246200008826 putative DNA-binding cleft [nucleotide binding]; other site 246200008827 dimer interface [polypeptide binding]; other site 246200008828 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 246200008829 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 246200008830 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; cl12011 246200008831 MatE; Region: MatE; cl10513 246200008832 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 246200008833 MatE; Region: MatE; cl10513 246200008834 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 246200008835 putative substrate translocation pore; other site 246200008836 putative inner membrane protein; Provisional; Region: PRK11099 246200008837 YeeE/YedE family (DUF395); Region: DUF395; cl01018 246200008838 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 246200008839 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 246200008840 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 246200008841 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 246200008842 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 246200008843 DNA binding residues [nucleotide binding] 246200008844 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 246200008845 primosome assembly protein PriA; Validated; Region: PRK05580 246200008846 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 246200008847 ATP binding site [chemical binding]; other site 246200008848 putative Mg++ binding site [ion binding]; other site 246200008849 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200008850 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 246200008851 active site 246200008852 intersubunit interactions; other site 246200008853 catalytic residue [active] 246200008854 Protein of unknown function, DUF484; Region: DUF484; cl01228 246200008855 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 246200008856 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 246200008857 DNA binding site [nucleotide binding] 246200008858 Int/Topo IB signature motif; other site 246200008859 active site 246200008860 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 246200008861 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 246200008862 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; cl12011 246200008863 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 246200008864 DNA binding site [nucleotide binding] 246200008865 active site 246200008866 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 246200008867 homodimer interface [polypeptide binding]; other site 246200008868 homotetramer interface [polypeptide binding]; other site 246200008869 active site pocket [active] 246200008870 cleavage site 246200008871 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 246200008872 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 246200008873 active site 246200008874 HIGH motif; other site 246200008875 nucleotide binding site [chemical binding]; other site 246200008876 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 246200008877 active site 246200008878 KMSKS motif; other site 246200008879 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 246200008880 tRNA binding surface [nucleotide binding]; other site 246200008881 anticodon binding site; other site 246200008882 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 246200008883 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_3; cd02434 246200008884 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 246200008885 heme-binding site [chemical binding]; other site 246200008886 Domain of unknown function (DUF697); Region: DUF697; cl12064 246200008887 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 246200008888 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200008889 YcjX-like family, DUF463; Region: DUF463; cl01193 246200008890 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 246200008891 PseudoU_synth_EcTruA: Pseudouridine synthase, Escherichia coli TruA like. This group consists of eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA, Pseudomonas aeruginosa truA and human pseudouridine synthase-like 1 (PUSL1); Region: PseudoU_synth_EcTruA; cd02570 246200008892 dimerization interface 3.5A [polypeptide binding]; other site 246200008893 active site 246200008894 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 246200008895 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 246200008896 TraB family; Region: TraB; cl12050 246200008897 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 246200008898 TraB family; Region: TraB; cl12050 246200008899 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 246200008900 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 246200008901 DHHA2 domain; Region: DHHA2; pfam02833 246200008902 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 246200008903 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 246200008904 conserved cys residue [active] 246200008905 Helix-turn-helix domain; Region: HTH_18; pfam12833 246200008906 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 246200008907 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 246200008908 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 246200008909 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 246200008910 dimer interaction site [polypeptide binding]; other site 246200008911 substrate-binding tunnel; other site 246200008912 active site 246200008913 catalytic site [active] 246200008914 substrate binding site [chemical binding]; other site 246200008915 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200008916 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; cl02041 246200008917 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 246200008918 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 246200008919 active site 246200008920 Riboflavin kinase; Region: Flavokinase; cl03312 246200008921 Flagellin N-methylase; Region: FliB; cl00497 246200008922 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 246200008923 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200008924 catalytic residue [active] 246200008925 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200008926 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 246200008927 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 246200008928 putative catalytic residue [active] 246200008929 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 246200008930 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 246200008931 H-type lectin domain; Region: H_lectin; pfam09458 246200008932 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13443 246200008933 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 246200008934 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 246200008935 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 246200008936 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 246200008937 alpha subunit interaction interface [polypeptide binding]; other site 246200008938 Walker A motif; other site 246200008939 ATP binding site [chemical binding]; other site 246200008940 Walker B motif; other site 246200008941 inhibitor binding site; inhibition site 246200008942 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 246200008943 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; cl00365 246200008944 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 246200008945 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 246200008946 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 246200008947 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 246200008948 beta subunit interaction interface [polypeptide binding]; other site 246200008949 Walker A motif; other site 246200008950 ATP binding site [chemical binding]; other site 246200008951 Walker B motif; other site 246200008952 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 246200008953 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl15360 246200008954 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 246200008955 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 246200008956 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; cl12011 246200008957 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200008958 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 246200008959 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 246200008960 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 246200008961 Walker A motif; other site 246200008962 ATP binding site [chemical binding]; other site 246200008963 Walker B motif; other site 246200008964 arginine finger; other site 246200008965 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 246200008966 Walker A motif; other site 246200008967 ATP binding site [chemical binding]; other site 246200008968 Walker B motif; other site 246200008969 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 246200008970 Peptidase family M23; Region: Peptidase_M23; pfam01551 246200008971 hypothetical protein; Validated; Region: PRK09039 246200008972 hypothetical protein; Validated; Region: PRK09039 246200008973 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 246200008974 ligand binding site [chemical binding]; other site 246200008975 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 246200008976 putative active site pocket [active] 246200008977 dimerization interface [polypeptide binding]; other site 246200008978 putative catalytic residue [active] 246200008979 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; cl11537 246200008980 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 246200008981 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 246200008982 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200008983 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 246200008984 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 246200008985 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200008986 homodimer interface [polypeptide binding]; other site 246200008987 catalytic residue [active] 246200008988 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 246200008989 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 246200008990 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200008991 catalytic residue [active] 246200008992 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200008993 Helix-turn-helix domains; Region: HTH; cl00088 246200008994 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 246200008995 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 246200008996 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 246200008997 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 246200008998 RNA binding surface [nucleotide binding]; other site 246200008999 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; cl14780 246200009000 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 246200009001 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 246200009002 putative [4Fe-4S] binding site [ion binding]; other site 246200009003 putative molybdopterin cofactor binding site [chemical binding]; other site 246200009004 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 246200009005 putative molybdopterin cofactor binding site; other site 246200009006 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 246200009007 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200009008 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 246200009009 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200009010 DNA-binding site [nucleotide binding]; DNA binding site 246200009011 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 246200009012 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200009013 homodimer interface [polypeptide binding]; other site 246200009014 catalytic residue [active] 246200009015 BCCT family transporter; Region: BCCT; cl00569 246200009016 BCCT family transporter; Region: BCCT; cl00569 246200009017 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 246200009018 Protein of unknown function (DUF3726); Region: DUF3726; pfam12525 246200009019 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 246200009020 active site 246200009021 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 246200009022 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200009023 NAD(P) binding site [chemical binding]; other site 246200009024 catalytic residues [active] 246200009025 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200009026 Helix-turn-helix domains; Region: HTH; cl00088 246200009027 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 246200009028 dimerization interface [polypeptide binding]; other site 246200009029 Protein of unknown function (DUF1489); Region: DUF1489; cl11570 246200009030 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 246200009031 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 246200009032 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 246200009033 active site 246200009034 dimer interface [polypeptide binding]; other site 246200009035 effector binding site; other site 246200009036 TSCPD domain; Region: TSCPD; cl14834 246200009037 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 246200009038 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 246200009039 Recombination protein O N terminal; Region: RecO_N; pfam11967 246200009040 Recombination protein O C terminal; Region: RecO_C; pfam02565 246200009041 META domain; Region: META; cl01245 246200009042 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 246200009043 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 246200009044 dimerization interface [polypeptide binding]; other site 246200009045 active site 246200009046 metal binding site [ion binding]; metal-binding site 246200009047 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 246200009048 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 246200009049 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 246200009050 Catalytic site [active] 246200009051 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 246200009052 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 246200009053 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 246200009054 active site 246200009055 hydrophilic channel; other site 246200009056 dimerization interface [polypeptide binding]; other site 246200009057 catalytic residues [active] 246200009058 active site lid [active] 246200009059 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; cl01261 246200009060 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 246200009061 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 246200009062 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 246200009063 synthetase active site [active] 246200009064 NTP binding site [chemical binding]; other site 246200009065 metal binding site [ion binding]; metal-binding site 246200009066 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 246200009067 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 246200009068 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 246200009069 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 246200009070 catalytic center binding site [active] 246200009071 ATP binding site [chemical binding]; other site 246200009072 Uncharacterized conserved protein [Function unknown]; Region: COG1432 246200009073 LabA_like proteins; Region: LabA; cd10911 246200009074 putative metal binding site [ion binding]; other site 246200009075 LytB protein; Region: LYTB; cl00507 246200009076 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 246200009077 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200009078 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 246200009079 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 246200009080 N-terminal domain interface [polypeptide binding]; other site 246200009081 dimer interface [polypeptide binding]; other site 246200009082 substrate binding pocket (H-site) [chemical binding]; other site 246200009083 LysE type translocator; Region: LysE; cl00565 246200009084 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 246200009085 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 246200009086 S-adenosylmethionine binding site [chemical binding]; other site 246200009087 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 246200009088 RNA/DNA hybrid binding site [nucleotide binding]; other site 246200009089 active site 246200009090 Predicted membrane protein [Function unknown]; Region: COG2860 246200009091 UPF0126 domain; Region: UPF0126; pfam03458 246200009092 UPF0126 domain; Region: UPF0126; pfam03458 246200009093 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 246200009094 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 246200009095 putative active site [active] 246200009096 substrate binding site [chemical binding]; other site 246200009097 putative cosubstrate binding site; other site 246200009098 catalytic site [active] 246200009099 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 246200009100 substrate binding site [chemical binding]; other site 246200009101 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 246200009102 active site 246200009103 catalytic residues [active] 246200009104 metal binding site [ion binding]; metal-binding site 246200009105 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 246200009106 active site 246200009107 catalytic residues [active] 246200009108 metal binding site [ion binding]; metal-binding site 246200009109 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 246200009110 active site 246200009111 catalytic residues [active] 246200009112 metal binding site [ion binding]; metal-binding site 246200009113 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 246200009114 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 246200009115 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200009116 homodimer interface [polypeptide binding]; other site 246200009117 catalytic residue [active] 246200009118 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 246200009119 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 246200009120 putative dimer interface [polypeptide binding]; other site 246200009121 N-terminal domain interface [polypeptide binding]; other site 246200009122 putative substrate binding pocket (H-site) [chemical binding]; other site 246200009123 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 246200009124 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 246200009125 active site 246200009126 phosphorylation site [posttranslational modification] 246200009127 intermolecular recognition site; other site 246200009128 dimerization interface [polypeptide binding]; other site 246200009129 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 246200009130 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 246200009131 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200009132 catalytic residue [active] 246200009133 CobD/Cbib protein; Region: CobD_Cbib; cl00561 246200009134 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 246200009135 lytic murein transglycosylase; Region: MltB_2; TIGR02283 246200009136 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 246200009137 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 246200009138 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 246200009139 Walker A/P-loop; other site 246200009140 ATP binding site [chemical binding]; other site 246200009141 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 246200009142 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 246200009143 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 246200009144 Walker B; other site 246200009145 D-loop; other site 246200009146 H-loop/switch region; other site 246200009147 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 246200009148 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 246200009149 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200009150 homodimer interface [polypeptide binding]; other site 246200009151 catalytic residue [active] 246200009152 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 246200009153 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200009154 DNA-binding site [nucleotide binding]; DNA binding site 246200009155 FCD domain; Region: FCD; cl11656 246200009156 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 246200009157 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 246200009158 F0F1 ATP synthase subunit B; Provisional; Region: PRK14475 246200009159 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 246200009160 ATP synthase subunit C; Region: ATP-synt_C; cl00466 246200009161 ATP synthase A chain; Region: ATP-synt_A; cl00413 246200009162 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 246200009163 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 246200009164 dimerization interface [polypeptide binding]; other site 246200009165 putative DNA binding site [nucleotide binding]; other site 246200009166 putative Zn2+ binding site [ion binding]; other site 246200009167 EamA-like transporter family; Region: EamA; cl01037 246200009168 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200009169 Helix-turn-helix domains; Region: HTH; cl00088 246200009170 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 246200009171 dimerization interface [polypeptide binding]; other site 246200009172 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200009173 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 246200009174 putative deacylase active site [active] 246200009175 Quinolinate synthetase A protein; Region: NadA; cl00420 246200009176 L-aspartate oxidase; Provisional; Region: PRK07512 246200009177 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200009178 domain; Region: Succ_DH_flav_C; pfam02910 246200009179 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 246200009180 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 246200009181 dimerization interface [polypeptide binding]; other site 246200009182 active site 246200009183 signal recognition particle protein; Provisional; Region: PRK10867 246200009184 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 246200009185 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200009186 Signal peptide binding domain; Region: SRP_SPB; pfam02978 246200009187 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 246200009188 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 246200009189 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 246200009190 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 246200009191 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 246200009192 Chorismate mutase type II; Region: CM_2; cl00693 246200009193 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 246200009194 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 246200009195 putative FMN binding site [chemical binding]; other site 246200009196 RimM N-terminal domain; Region: RimM; pfam01782 246200009197 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 246200009198 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 246200009199 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 246200009200 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 246200009201 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 246200009202 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 246200009203 active site 246200009204 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 246200009205 Macrocin-O-methyltransferase (TylF); Region: TylF; pfam05711 246200009206 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200009207 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 246200009208 C-terminal domain interface [polypeptide binding]; other site 246200009209 GSH binding site (G-site) [chemical binding]; other site 246200009210 dimer interface [polypeptide binding]; other site 246200009211 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 246200009212 N-terminal domain interface [polypeptide binding]; other site 246200009213 dimer interface [polypeptide binding]; other site 246200009214 substrate binding pocket (H-site) [chemical binding]; other site 246200009215 Helix-turn-helix domains; Region: HTH; cl00088 246200009216 Ferric reductase like transmembrane component; Region: Ferric_reduct; cl01043 246200009217 TMAO/DMSO reductase; Reviewed; Region: PRK05363 246200009218 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 246200009219 Moco binding site; other site 246200009220 metal coordination site [ion binding]; other site 246200009221 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 246200009222 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 246200009223 active site 246200009224 FMN binding site [chemical binding]; other site 246200009225 substrate binding site [chemical binding]; other site 246200009226 3Fe-4S cluster binding site [ion binding]; other site 246200009227 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 246200009228 Clp amino terminal domain; Region: Clp_N; pfam02861 246200009229 Clp amino terminal domain; Region: Clp_N; pfam02861 246200009230 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 246200009231 Walker A motif; other site 246200009232 ATP binding site [chemical binding]; other site 246200009233 Walker B motif; other site 246200009234 arginine finger; other site 246200009235 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 246200009236 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 246200009237 Walker A motif; other site 246200009238 ATP binding site [chemical binding]; other site 246200009239 Walker B motif; other site 246200009240 arginine finger; other site 246200009241 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 246200009242 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 246200009243 active site 246200009244 dimer interface [polypeptide binding]; other site 246200009245 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_23; cd04682 246200009246 nudix motif; other site 246200009247 DNA polymerase IV; Provisional; Region: PRK02794 246200009248 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 246200009249 active site 246200009250 DNA binding site [nucleotide binding] 246200009251 DinB superfamily; Region: DinB_2; cl00986 246200009252 N-formylglutamate amidohydrolase; Region: FGase; cl01522 246200009253 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 246200009254 Sulfatase; Region: Sulfatase; cl10460 246200009255 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 246200009256 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 246200009257 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 246200009258 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200009259 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200009260 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 246200009261 Walker A/P-loop; other site 246200009262 ATP binding site [chemical binding]; other site 246200009263 Q-loop/lid; other site 246200009264 ABC transporter signature motif; other site 246200009265 Walker B; other site 246200009266 D-loop; other site 246200009267 H-loop/switch region; other site 246200009268 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 246200009269 putative ligand binding site [chemical binding]; other site 246200009270 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 246200009271 TM-ABC transporter signature motif; other site 246200009272 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 246200009273 TM-ABC transporter signature motif; other site 246200009274 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200009275 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 246200009276 Walker A/P-loop; other site 246200009277 ATP binding site [chemical binding]; other site 246200009278 Q-loop/lid; other site 246200009279 ABC transporter signature motif; other site 246200009280 Walker B; other site 246200009281 D-loop; other site 246200009282 H-loop/switch region; other site 246200009283 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 246200009284 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200009285 PAS fold; Region: PAS_7; pfam12860 246200009286 sensory histidine kinase AtoS; Provisional; Region: PRK11360 246200009287 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 246200009288 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 246200009289 ATP binding site [chemical binding]; other site 246200009290 Mg2+ binding site [ion binding]; other site 246200009291 G-X-G motif; other site 246200009292 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 246200009293 Response regulator receiver domain; Region: Response_reg; pfam00072 246200009294 active site 246200009295 phosphorylation site [posttranslational modification] 246200009296 intermolecular recognition site; other site 246200009297 dimerization interface [polypeptide binding]; other site 246200009298 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 246200009299 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 246200009300 active site 246200009301 phosphorylation site [posttranslational modification] 246200009302 intermolecular recognition site; other site 246200009303 dimerization interface [polypeptide binding]; other site 246200009304 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 246200009305 DNA binding site [nucleotide binding] 246200009306 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200009307 Helix-turn-helix domains; Region: HTH; cl00088 246200009308 MAPEG family; Region: MAPEG; cl09190 246200009309 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200009310 Helix-turn-helix domains; Region: HTH; cl00088 246200009311 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 246200009312 dimerization interface [polypeptide binding]; other site 246200009313 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 246200009314 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 246200009315 active site 246200009316 catalytic triad [active] 246200009317 oxyanion hole [active] 246200009318 allantoate amidohydrolase; Reviewed; Region: PRK12893 246200009319 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 246200009320 active site 246200009321 metal binding site [ion binding]; metal-binding site 246200009322 dimer interface [polypeptide binding]; other site 246200009323 phosphoglycerate mutase; Provisional; Region: PTZ00122 246200009324 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 246200009325 catalytic core [active] 246200009326 glutathionine S-transferase; Provisional; Region: PRK10542 246200009327 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 246200009328 C-terminal domain interface [polypeptide binding]; other site 246200009329 GSH binding site (G-site) [chemical binding]; other site 246200009330 dimer interface [polypeptide binding]; other site 246200009331 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 246200009332 dimer interface [polypeptide binding]; other site 246200009333 N-terminal domain interface [polypeptide binding]; other site 246200009334 substrate binding pocket (H-site) [chemical binding]; other site 246200009335 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 246200009336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200009337 PQ loop repeat; Region: PQ-loop; cl12056 246200009338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200009339 NAD(P) binding pocket [chemical binding]; other site 246200009340 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 246200009341 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 246200009342 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 246200009343 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 246200009344 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 246200009345 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 246200009346 DNA binding site [nucleotide binding] 246200009347 active site 246200009348 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 246200009349 tetramer interface [polypeptide binding]; other site 246200009350 active site 246200009351 Mg2+/Mn2+ binding site [ion binding]; other site 246200009352 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 246200009353 non-specific DNA binding site [nucleotide binding]; other site 246200009354 salt bridge; other site 246200009355 sequence-specific DNA binding site [nucleotide binding]; other site 246200009356 Cupin domain; Region: Cupin_2; cl09118 246200009357 Dehydratase family; Region: ILVD_EDD; cl00340 246200009358 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200009359 Helix-turn-helix domains; Region: HTH; cl00088 246200009360 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 246200009361 dimerization interface [polypeptide binding]; other site 246200009362 Domain of unknown function (DUF897); Region: DUF897; cl01312 246200009363 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200009364 Helix-turn-helix domains; Region: HTH; cl00088 246200009365 Sulfotransferase family; Region: Sulfotransfer_2; cl12149 246200009366 Core-2/I-Branching enzyme; Region: Branch; pfam02485 246200009367 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 246200009368 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200009369 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 246200009370 Cupin domain; Region: Cupin_2; cl09118 246200009371 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 246200009372 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 246200009373 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 246200009374 active site 246200009375 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200009376 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 246200009377 tetramerization interface [polypeptide binding]; other site 246200009378 NAD(P) binding site [chemical binding]; other site 246200009379 catalytic residues [active] 246200009380 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 246200009381 heme-binding site [chemical binding]; other site 246200009382 ribonuclease R; Region: RNase_R; TIGR02063 246200009383 Helix-turn-helix domains; Region: HTH; cl00088 246200009384 RNB domain; Region: RNB; pfam00773 246200009385 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 246200009386 RNA binding site [nucleotide binding]; other site 246200009387 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 246200009388 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 246200009389 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 246200009390 metal binding site [ion binding]; metal-binding site 246200009391 dimer interface [polypeptide binding]; other site 246200009392 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; cl14780 246200009393 Hint domain; Region: Hint_2; pfam13403 246200009394 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 246200009395 substrate binding pocket [chemical binding]; other site 246200009396 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 246200009397 membrane-bound complex binding site; other site 246200009398 hinge residues; other site 246200009399 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 246200009400 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 246200009401 trimer interface [polypeptide binding]; other site 246200009402 active site 246200009403 substrate binding site [chemical binding]; other site 246200009404 CoA binding site [chemical binding]; other site 246200009405 biotin synthase; Region: bioB; TIGR00433 246200009406 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 246200009407 FeS/SAM binding site; other site 246200009408 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 246200009409 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 246200009410 Transcriptional regulators [Transcription]; Region: FadR; COG2186 246200009411 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200009412 DNA-binding site [nucleotide binding]; DNA binding site 246200009413 FCD domain; Region: FCD; cl11656 246200009414 hypothetical protein; Provisional; Region: PRK06815 246200009415 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 246200009416 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200009417 catalytic residue [active] 246200009418 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 246200009419 cystathionine gamma-lyase; Validated; Region: PRK07582 246200009420 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 246200009421 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200009422 catalytic residue [active] 246200009423 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 246200009424 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 246200009425 FeS/SAM binding site; other site 246200009426 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 246200009427 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 246200009428 L-asparaginase II; Region: Asparaginase_II; cl01842 246200009429 YCII-related domain; Region: YCII; cl00999 246200009430 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 246200009431 putative hydrophobic ligand binding site [chemical binding]; other site 246200009432 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 246200009433 dimerization interface [polypeptide binding]; other site 246200009434 putative DNA binding site [nucleotide binding]; other site 246200009435 putative Zn2+ binding site [ion binding]; other site 246200009436 phosphoserine phosphatase SerB; Region: serB; TIGR00338 246200009437 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 246200009438 motif II; other site 246200009439 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 246200009440 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 246200009441 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200009442 catalytic residue [active] 246200009443 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 246200009444 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200009445 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 246200009446 putative L-serine binding site [chemical binding]; other site 246200009447 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200009448 Helix-turn-helix domains; Region: HTH; cl00088 246200009449 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 246200009450 substrate binding pocket [chemical binding]; other site 246200009451 dimerization interface [polypeptide binding]; other site 246200009452 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 246200009453 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 246200009454 active site 246200009455 metal binding site [ion binding]; metal-binding site 246200009456 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 246200009457 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 246200009458 NAD(P) binding site [chemical binding]; other site 246200009459 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 246200009460 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 246200009461 substrate-cofactor binding pocket; other site 246200009462 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200009463 catalytic residue [active] 246200009464 RmuC family; Region: RmuC; pfam02646 246200009465 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 246200009466 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 246200009467 ATP binding site [chemical binding]; other site 246200009468 Mg2+ binding site [ion binding]; other site 246200009469 G-X-G motif; other site 246200009470 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 246200009471 ATP binding site [chemical binding]; other site 246200009472 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 246200009473 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 246200009474 ABC-ATPase subunit interface; other site 246200009475 dimer interface [polypeptide binding]; other site 246200009476 putative PBP binding regions; other site 246200009477 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 246200009478 ABC-ATPase subunit interface; other site 246200009479 dimer interface [polypeptide binding]; other site 246200009480 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 246200009481 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 246200009482 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 246200009483 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 246200009484 intersubunit interface [polypeptide binding]; other site 246200009485 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 246200009486 intersubunit interface [polypeptide binding]; other site 246200009487 active site 246200009488 catalytic residue [active] 246200009489 Aldehyde dehydrogenase family 16A1-like; Region: ALDH_F16; cd07111 246200009490 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200009491 NAD(P) binding site [chemical binding]; other site 246200009492 catalytic residues [active] 246200009493 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 246200009494 NAD(P) binding site [chemical binding]; other site 246200009495 short chain dehydrogenase; Provisional; Region: PRK07576 246200009496 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200009497 NAD(P) binding site [chemical binding]; other site 246200009498 active site 246200009499 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 246200009500 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 246200009501 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 246200009502 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 246200009503 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 246200009504 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 246200009505 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 246200009506 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 246200009507 lipoprotein signal peptidase; Provisional; Region: PRK14787 246200009508 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 246200009509 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 246200009510 purine monophosphate binding site [chemical binding]; other site 246200009511 dimer interface [polypeptide binding]; other site 246200009512 putative catalytic residues [active] 246200009513 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 246200009514 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 246200009515 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 246200009516 putative RNA binding site [nucleotide binding]; other site 246200009517 16S rRNA methyltransferase B; Provisional; Region: PRK10901 246200009518 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 246200009519 S-adenosylmethionine binding site [chemical binding]; other site 246200009520 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 246200009521 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 246200009522 Permease family; Region: Xan_ur_permease; cl00967 246200009523 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200009524 Helix-turn-helix domains; Region: HTH; cl00088 246200009525 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 246200009526 dimerization interface [polypeptide binding]; other site 246200009527 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 246200009528 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 246200009529 substrate binding pocket [chemical binding]; other site 246200009530 active site 246200009531 iron coordination sites [ion binding]; other site 246200009532 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 246200009533 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 246200009534 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200009535 NAD binding site [chemical binding]; other site 246200009536 catalytic residues [active] 246200009537 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 246200009538 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 246200009539 dimer interface [polypeptide binding]; other site 246200009540 decamer (pentamer of dimers) interface [polypeptide binding]; other site 246200009541 catalytic triad [active] 246200009542 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; cl12011 246200009543 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 246200009544 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 246200009545 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200009546 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200009547 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 246200009548 Helix-turn-helix domains; Region: HTH; cl00088 246200009549 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 246200009550 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 246200009551 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 246200009552 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 246200009553 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 246200009554 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 246200009555 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 246200009556 putative nucleic acid binding region [nucleotide binding]; other site 246200009557 G-X-X-G motif; other site 246200009558 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 246200009559 RNA binding site [nucleotide binding]; other site 246200009560 domain interface; other site 246200009561 Glycosyl transferase family 11; Region: Glyco_transf_11; pfam01531 246200009562 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 246200009563 active site 246200009564 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 246200009565 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 246200009566 active site 246200009567 catalytic triad [active] 246200009568 oxyanion hole [active] 246200009569 Predicted permeases [General function prediction only]; Region: RarD; COG2962 246200009570 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200009571 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200009572 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200009573 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 246200009574 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200009575 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200009576 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 246200009577 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200009578 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 246200009579 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 246200009580 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 246200009581 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 246200009582 putative NAD(P) binding site [chemical binding]; other site 246200009583 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200009584 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200009585 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200009586 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200009587 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 246200009588 LysE type translocator; Region: LysE; cl00565 246200009589 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 246200009590 non-specific DNA binding site [nucleotide binding]; other site 246200009591 salt bridge; other site 246200009592 sequence-specific DNA binding site [nucleotide binding]; other site 246200009593 Cupin domain; Region: Cupin_2; cl09118 246200009594 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 246200009595 GAF domain; Region: GAF; cl00853 246200009596 Helix-turn-helix domains; Region: HTH; cl00088 246200009597 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 246200009598 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 246200009599 dimer interface [polypeptide binding]; other site 246200009600 active site 246200009601 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 246200009602 anti sigma factor interaction site; other site 246200009603 regulatory phosphorylation site [posttranslational modification]; other site 246200009604 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 246200009605 ATP binding site [chemical binding]; other site 246200009606 Mg2+ binding site [ion binding]; other site 246200009607 G-X-G motif; other site 246200009608 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 246200009609 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 246200009610 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; cl01548 246200009611 Membrane transport protein; Region: Mem_trans; cl09117 246200009612 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 246200009613 N-acetyl-D-glucosamine binding site [chemical binding]; other site 246200009614 catalytic residue [active] 246200009615 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 246200009616 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200009617 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 246200009618 succinyldiaminopimelate transaminase; Region: DapC_gpp; TIGR03538 246200009619 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 246200009620 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200009621 homodimer interface [polypeptide binding]; other site 246200009622 catalytic residue [active] 246200009623 amidase; Provisional; Region: PRK07056 246200009624 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 246200009625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200009626 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 246200009627 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 246200009628 Trm112p-like protein; Region: Trm112p; cl01066 246200009629 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 246200009630 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 246200009631 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 246200009632 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 246200009633 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 246200009634 putative phosphate binding site [ion binding]; other site 246200009635 putative catalytic site [active] 246200009636 active site 246200009637 metal binding site A [ion binding]; metal-binding site 246200009638 DNA binding site [nucleotide binding] 246200009639 putative AP binding site [nucleotide binding]; other site 246200009640 putative metal binding site B [ion binding]; other site 246200009641 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 246200009642 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 246200009643 active site 246200009644 phosphorylation site [posttranslational modification] 246200009645 intermolecular recognition site; other site 246200009646 dimerization interface [polypeptide binding]; other site 246200009647 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 246200009648 DNA binding site [nucleotide binding] 246200009649 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 246200009650 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 246200009651 dimerization interface [polypeptide binding]; other site 246200009652 active site 246200009653 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 246200009654 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 246200009655 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 246200009656 catalytic residue [active] 246200009657 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; cl00284 246200009658 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 246200009659 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 246200009660 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 246200009661 HIGH motif; other site 246200009662 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 246200009663 active site 246200009664 KMSKS motif; other site 246200009665 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 246200009666 tRNA binding surface [nucleotide binding]; other site 246200009667 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 246200009668 Predicted secreted (periplasmic) protein (DUF2159); Region: DUF2159; cl11572 246200009669 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 246200009670 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 246200009671 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200009672 putative C-terminal domain interface [polypeptide binding]; other site 246200009673 putative GSH binding site (G-site) [chemical binding]; other site 246200009674 putative dimer interface [polypeptide binding]; other site 246200009675 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 246200009676 dimer interface [polypeptide binding]; other site 246200009677 substrate binding pocket (H-site) [chemical binding]; other site 246200009678 N-terminal domain interface [polypeptide binding]; other site 246200009679 flavoprotein, HI0933 family; Region: TIGR00275 246200009680 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200009681 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200009682 Mechanosensitive ion channel; Region: MS_channel; pfam00924 246200009683 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; cl00083 246200009684 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 246200009685 substrate binding site [chemical binding]; other site 246200009686 oxyanion hole (OAH) forming residues; other site 246200009687 trimer interface [polypeptide binding]; other site 246200009688 short chain dehydrogenase; Provisional; Region: PRK12828 246200009689 classical (c) SDRs; Region: SDR_c; cd05233 246200009690 NAD(P) binding site [chemical binding]; other site 246200009691 active site 246200009692 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; cl00398 246200009693 Putative modulator of DNA gyrase; Region: PmbA_TldD; pfam01523 246200009694 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 246200009695 active site 246200009696 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 246200009697 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 246200009698 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 246200009699 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 246200009700 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 246200009701 Protein of unknown function (DUF721); Region: DUF721; cl02324 246200009702 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 246200009703 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 246200009704 minor groove reading motif; other site 246200009705 helix-hairpin-helix signature motif; other site 246200009706 substrate binding pocket [chemical binding]; other site 246200009707 active site 246200009708 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 246200009709 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 246200009710 DNA binding and oxoG recognition site [nucleotide binding] 246200009711 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 246200009712 Fatty acid desaturase; Region: FA_desaturase; pfam00487 246200009713 Di-iron ligands [ion binding]; other site 246200009714 cyclase homology domain; Region: CHD; cd07302 246200009715 nucleotidyl binding site; other site 246200009716 metal binding site [ion binding]; metal-binding site 246200009717 dimer interface [polypeptide binding]; other site 246200009718 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 246200009719 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; cl12011 246200009720 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 246200009721 RNA/DNA hybrid binding site [nucleotide binding]; other site 246200009722 active site 246200009723 Helix-turn-helix domains; Region: HTH; cl00088 246200009724 DNA binding site [nucleotide binding] 246200009725 Domain of unknown function (DUF427); Region: DUF427; cl00998 246200009726 cyclase homology domain; Region: CHD; cd07302 246200009727 nucleotidyl binding site; other site 246200009728 metal binding site [ion binding]; metal-binding site 246200009729 dimer interface [polypeptide binding]; other site 246200009730 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 246200009731 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 246200009732 Flagellar protein FlbT; Region: FlbT; cl11455 246200009733 Flagellar protein FlaF; Region: FlaF; cl11454 246200009734 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 246200009735 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 246200009736 FlgN protein; Region: FlgN; cl09176 246200009737 Rod binding protein; Region: Rod-binding; cl01626 246200009738 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14950 246200009739 Flagellar hook-length control protein FliK; Region: Flg_hook; cl15269 246200009740 Flagellar hook capping protein; Region: FlgD; cl04347 246200009741 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 246200009742 Phosphotransferase enzyme family; Region: APH; pfam01636 246200009743 active site 246200009744 substrate binding site [chemical binding]; other site 246200009745 ATP binding site [chemical binding]; other site 246200009746 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 246200009747 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200009748 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200009749 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 246200009750 dimer interface [polypeptide binding]; other site 246200009751 conserved gate region; other site 246200009752 putative PBP binding loops; other site 246200009753 ABC-ATPase subunit interface; other site 246200009754 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 246200009755 dimer interface [polypeptide binding]; other site 246200009756 conserved gate region; other site 246200009757 putative PBP binding loops; other site 246200009758 ABC-ATPase subunit interface; other site 246200009759 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 246200009760 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200009761 Walker A/P-loop; other site 246200009762 ATP binding site [chemical binding]; other site 246200009763 Q-loop/lid; other site 246200009764 ABC transporter signature motif; other site 246200009765 Walker B; other site 246200009766 D-loop; other site 246200009767 H-loop/switch region; other site 246200009768 TOBE domain; Region: TOBE_2; cl01440 246200009769 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 246200009770 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 246200009771 Transcriptional regulators [Transcription]; Region: GntR; COG1802 246200009772 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200009773 DNA-binding site [nucleotide binding]; DNA binding site 246200009774 FCD domain; Region: FCD; cl11656 246200009775 putative aminotransferase; Validated; Region: PRK07480 246200009776 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 246200009777 inhibitor-cofactor binding pocket; inhibition site 246200009778 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200009779 catalytic residue [active] 246200009780 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 246200009781 PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D. PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required...; Region: ABC_PotA_N; cd03300 246200009782 Walker A/P-loop; other site 246200009783 ATP binding site [chemical binding]; other site 246200009784 Q-loop/lid; other site 246200009785 ABC transporter signature motif; other site 246200009786 Walker B; other site 246200009787 D-loop; other site 246200009788 H-loop/switch region; other site 246200009789 TOBE domain; Region: TOBE_2; cl01440 246200009790 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 246200009791 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 246200009792 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 246200009793 putative PBP binding loops; other site 246200009794 ABC-ATPase subunit interface; other site 246200009795 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 246200009796 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 246200009797 dimer interface [polypeptide binding]; other site 246200009798 conserved gate region; other site 246200009799 putative PBP binding loops; other site 246200009800 ABC-ATPase subunit interface; other site 246200009801 Protein of unknown function, DUF599; Region: DUF599; cl01575 246200009802 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 246200009803 FAD binding domain; Region: FAD_binding_4; pfam01565 246200009804 FAD binding domain; Region: FAD_binding_4; pfam01565 246200009805 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 246200009806 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 246200009807 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 246200009808 Cysteine-rich domain; Region: CCG; pfam02754 246200009809 Cysteine-rich domain; Region: CCG; pfam02754 246200009810 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 246200009811 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200009812 putative substrate translocation pore; other site 246200009813 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 246200009814 active site 246200009815 substrate binding sites [chemical binding]; other site 246200009816 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 246200009817 active site 246200009818 substrate binding sites [chemical binding]; other site 246200009819 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 246200009820 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 246200009821 putative dimer interface [polypeptide binding]; other site 246200009822 Protein of unknown function (DUF419); Region: DUF419; cl15265 246200009823 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 246200009824 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 246200009825 putative N-terminal domain interface [polypeptide binding]; other site 246200009826 Predicted transcriptional regulator [Transcription]; Region: COG2378 246200009827 Helix-turn-helix domains; Region: HTH; cl00088 246200009828 lytic murein transglycosylase; Region: MltB_2; TIGR02283 246200009829 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 246200009830 N-acetyl-D-glucosamine binding site [chemical binding]; other site 246200009831 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 246200009832 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 246200009833 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 246200009834 putative tRNA-binding site [nucleotide binding]; other site 246200009835 B3/4 domain; Region: B3_4; cl11458 246200009836 tRNA synthetase B5 domain; Region: B5; cl08394 246200009837 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 246200009838 dimer interface [polypeptide binding]; other site 246200009839 motif 1; other site 246200009840 motif 3; other site 246200009841 motif 2; other site 246200009842 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 246200009843 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200009844 Helix-turn-helix domains; Region: HTH; cl00088 246200009845 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 246200009846 dimerization interface [polypeptide binding]; other site 246200009847 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 246200009848 S-adenosylmethionine binding site [chemical binding]; other site 246200009849 Protein of unknown function (DUF2872); Region: DUF2872; cl11924 246200009850 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 246200009851 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200009852 putative substrate translocation pore; other site 246200009853 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 246200009854 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 246200009855 C-terminal domain interface [polypeptide binding]; other site 246200009856 GSH binding site (G-site) [chemical binding]; other site 246200009857 dimer interface [polypeptide binding]; other site 246200009858 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 246200009859 dimer interface [polypeptide binding]; other site 246200009860 N-terminal domain interface [polypeptide binding]; other site 246200009861 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 246200009862 Mechanosensitive ion channel; Region: MS_channel; pfam00924 246200009863 elongation factor Tu; Reviewed; Region: PRK00049 246200009864 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 246200009865 G1 box; other site 246200009866 GEF interaction site [polypeptide binding]; other site 246200009867 GTP/Mg2+ binding site [chemical binding]; other site 246200009868 Switch I region; other site 246200009869 G2 box; other site 246200009870 G3 box; other site 246200009871 Switch II region; other site 246200009872 G4 box; other site 246200009873 G5 box; other site 246200009874 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 246200009875 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 246200009876 Antibiotic Binding Site [chemical binding]; other site 246200009877 elongation factor G; Reviewed; Region: PRK00007 246200009878 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 246200009879 G1 box; other site 246200009880 putative GEF interaction site [polypeptide binding]; other site 246200009881 GTP/Mg2+ binding site [chemical binding]; other site 246200009882 Switch I region; other site 246200009883 G2 box; other site 246200009884 G3 box; other site 246200009885 Switch II region; other site 246200009886 G4 box; other site 246200009887 G5 box; other site 246200009888 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 246200009889 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 246200009890 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 246200009891 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 246200009892 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 246200009893 S17 interaction site [polypeptide binding]; other site 246200009894 S8 interaction site; other site 246200009895 16S rRNA interaction site [nucleotide binding]; other site 246200009896 streptomycin interaction site [chemical binding]; other site 246200009897 23S rRNA interaction site [nucleotide binding]; other site 246200009898 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 246200009899 Protein of unknown function (DUF3118); Region: DUF3118; pfam11316 246200009900 Protein of unknown function (DUF3118); Region: DUF3118; pfam11316 246200009901 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200009902 EamA-like transporter family; Region: EamA; cl01037 246200009903 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 246200009904 putative substrate translocation pore; other site 246200009905 Helix-turn-helix domains; Region: HTH; cl00088 246200009906 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 246200009907 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 246200009908 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 246200009909 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 246200009910 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 246200009911 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 246200009912 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 246200009913 cleft; other site 246200009914 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 246200009915 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 246200009916 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 246200009917 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 246200009918 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 246200009919 DNA binding site [nucleotide binding] 246200009920 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 246200009921 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 246200009922 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 246200009923 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 246200009924 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 246200009925 RPB12 interaction site [polypeptide binding]; other site 246200009926 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 246200009927 RPB11 interaction site [polypeptide binding]; other site 246200009928 RPB12 interaction site [polypeptide binding]; other site 246200009929 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 246200009930 RPB3 interaction site [polypeptide binding]; other site 246200009931 RPB1 interaction site [polypeptide binding]; other site 246200009932 RPB11 interaction site [polypeptide binding]; other site 246200009933 RPB10 interaction site [polypeptide binding]; other site 246200009934 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 246200009935 core dimer interface [polypeptide binding]; other site 246200009936 peripheral dimer interface [polypeptide binding]; other site 246200009937 L10 interface [polypeptide binding]; other site 246200009938 L11 interface [polypeptide binding]; other site 246200009939 putative EF-Tu interaction site [polypeptide binding]; other site 246200009940 putative EF-G interaction site [polypeptide binding]; other site 246200009941 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 246200009942 23S rRNA interface [nucleotide binding]; other site 246200009943 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 246200009944 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 246200009945 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 246200009946 mRNA/rRNA interface [nucleotide binding]; other site 246200009947 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 246200009948 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 246200009949 23S rRNA interface [nucleotide binding]; other site 246200009950 L7/L12 interface [polypeptide binding]; other site 246200009951 putative thiostrepton binding site; other site 246200009952 L25 interface [polypeptide binding]; other site 246200009953 Hint domain; Region: Hint_2; pfam13403 246200009954 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 246200009955 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 246200009956 putative homodimer interface [polypeptide binding]; other site 246200009957 KOW motif; Region: KOW; cl00354 246200009958 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 246200009959 Cupin domain; Region: Cupin_2; cl09118 246200009960 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 246200009961 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 246200009962 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 246200009963 metal-binding site [ion binding] 246200009964 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 246200009965 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 246200009966 FixH; Region: FixH; cl01254 246200009967 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 246200009968 4Fe-4S binding domain; Region: Fer4_5; pfam12801 246200009969 4Fe-4S binding domain; Region: Fer4_3; pfam12798 246200009970 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 246200009971 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 246200009972 Cytochrome c; Region: Cytochrom_C; cl11414 246200009973 Cytochrome c; Region: Cytochrom_C; cl11414 246200009974 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 246200009975 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 246200009976 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 246200009977 Low-spin heme binding site [chemical binding]; other site 246200009978 Putative water exit pathway; other site 246200009979 Binuclear center (active site) [active] 246200009980 Putative proton exit pathway; other site 246200009981 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 246200009982 Ligand Binding Site [chemical binding]; other site 246200009983 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 246200009984 Glycine/serine hydroxymethyltransferase [Amino acid transport and metabolism]; Region: GlyA; COG0112 246200009985 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200009986 catalytic residue [active] 246200009987 Helix-turn-helix domains; Region: HTH; cl00088 246200009988 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 246200009989 dimerization interface [polypeptide binding]; other site 246200009990 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 246200009991 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 246200009992 ligand binding site [chemical binding]; other site 246200009993 flexible hinge region; other site 246200009994 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 246200009995 putative switch regulator; other site 246200009996 non-specific DNA interactions [nucleotide binding]; other site 246200009997 DNA binding site [nucleotide binding] 246200009998 sequence specific DNA binding site [nucleotide binding]; other site 246200009999 putative cAMP binding site [chemical binding]; other site 246200010000 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 246200010001 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 246200010002 FeS/SAM binding site; other site 246200010003 HemN C-terminal region; Region: HemN_C; pfam06969 246200010004 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G_bact; cd04170 246200010005 elongation factor G; Reviewed; Region: PRK12740 246200010006 G1 box; other site 246200010007 putative GEF interaction site [polypeptide binding]; other site 246200010008 GTP/Mg2+ binding site [chemical binding]; other site 246200010009 Switch I region; other site 246200010010 G2 box; other site 246200010011 G3 box; other site 246200010012 Switch II region; other site 246200010013 G4 box; other site 246200010014 G5 box; other site 246200010015 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 246200010016 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 246200010017 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 246200010018 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 246200010019 Walker A/P-loop; other site 246200010020 ATP binding site [chemical binding]; other site 246200010021 Q-loop/lid; other site 246200010022 ABC transporter signature motif; other site 246200010023 Walker B; other site 246200010024 D-loop; other site 246200010025 H-loop/switch region; other site 246200010026 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200010027 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 246200010028 Walker A/P-loop; other site 246200010029 ATP binding site [chemical binding]; other site 246200010030 Q-loop/lid; other site 246200010031 ABC transporter signature motif; other site 246200010032 Walker B; other site 246200010033 D-loop; other site 246200010034 H-loop/switch region; other site 246200010035 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 246200010036 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 246200010037 dimer interface [polypeptide binding]; other site 246200010038 conserved gate region; other site 246200010039 putative PBP binding loops; other site 246200010040 ABC-ATPase subunit interface; other site 246200010041 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 246200010042 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 246200010043 dimer interface [polypeptide binding]; other site 246200010044 conserved gate region; other site 246200010045 putative PBP binding loops; other site 246200010046 ABC-ATPase subunit interface; other site 246200010047 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 246200010048 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 246200010049 Cytochrome c; Region: Cytochrom_C; cl11414 246200010050 prephenate dehydratase; Provisional; Region: PRK11899 246200010051 Prephenate dehydratase; Region: PDT; pfam00800 246200010052 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 246200010053 putative L-Phe binding site [chemical binding]; other site 246200010054 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 246200010055 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 246200010056 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 246200010057 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 246200010058 putative NADH binding site [chemical binding]; other site 246200010059 putative active site [active] 246200010060 nudix motif; other site 246200010061 putative metal binding site [ion binding]; other site 246200010062 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 246200010063 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 246200010064 active site 246200010065 metal binding site [ion binding]; metal-binding site 246200010066 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 246200010067 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200010068 GTP/Mg2+ binding site [chemical binding]; other site 246200010069 G5 box; other site 246200010070 G1 box; other site 246200010071 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 246200010072 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200010073 Helix-turn-helix domains; Region: HTH; cl00088 246200010074 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 246200010075 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 246200010076 active site 246200010077 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 246200010078 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 246200010079 Walker A motif; other site 246200010080 ATP binding site [chemical binding]; other site 246200010081 Walker B motif; other site 246200010082 arginine finger; other site 246200010083 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 246200010084 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 246200010085 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 246200010086 putative acetyltransferase; Provisional; Region: PRK03624 246200010087 Coenzyme A binding pocket [chemical binding]; other site 246200010088 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200010089 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200010090 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; cl12011 246200010091 lytic murein transglycosylase; Provisional; Region: PRK11619 246200010092 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 246200010093 N-acetyl-D-glucosamine binding site [chemical binding]; other site 246200010094 catalytic residue [active] 246200010095 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 246200010096 dihydrodipicolinate synthase; Region: dapA; TIGR00674 246200010097 dimer interface [polypeptide binding]; other site 246200010098 active site 246200010099 catalytic residue [active] 246200010100 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl04869 246200010101 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 246200010102 4Fe-4S binding domain; Region: Fer4; cl02805 246200010103 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 246200010104 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 246200010105 molybdopterin cofactor binding site; other site 246200010106 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 246200010107 The MopB_CT_2 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. This CD is...; Region: MopB_CT_2; cd02783 246200010108 putative molybdopterin cofactor binding site; other site 246200010109 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 246200010110 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 246200010111 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 246200010112 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 246200010113 PYR/PP interface [polypeptide binding]; other site 246200010114 dimer interface [polypeptide binding]; other site 246200010115 TPP binding site [chemical binding]; other site 246200010116 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 246200010117 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 246200010118 TPP-binding site [chemical binding]; other site 246200010119 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 246200010120 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200010121 DNA-binding site [nucleotide binding]; DNA binding site 246200010122 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 246200010123 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200010124 homodimer interface [polypeptide binding]; other site 246200010125 catalytic residue [active] 246200010126 Helix-turn-helix domains; Region: HTH; cl00088 246200010127 Predicted permease; Region: DUF318; cl00487 246200010128 Protein of unknown function (DUF1013); Region: DUF1013; cl11533 246200010129 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 246200010130 B1 nucleotide binding pocket [chemical binding]; other site 246200010131 B2 nucleotide binding pocket [chemical binding]; other site 246200010132 CAS motifs; other site 246200010133 active site 246200010134 recombination protein RecR; Reviewed; Region: recR; PRK00076 246200010135 RecR protein; Region: RecR; pfam02132 246200010136 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 246200010137 putative active site [active] 246200010138 putative metal-binding site [ion binding]; other site 246200010139 tetramer interface [polypeptide binding]; other site 246200010140 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 246200010141 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200010142 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 246200010143 conserved cys residue [active] 246200010144 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 246200010145 catalytic triad [active] 246200010146 conserved cis-peptide bond; other site 246200010147 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 246200010148 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200010149 NAD(P) binding site [chemical binding]; other site 246200010150 active site 246200010151 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 246200010152 DNA binding residues [nucleotide binding] 246200010153 putative dimer interface [polypeptide binding]; other site 246200010154 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 246200010155 ligand binding site [chemical binding]; other site 246200010156 Predicted transcriptional regulator [Transcription]; Region: COG2378 246200010157 Helix-turn-helix domains; Region: HTH; cl00088 246200010158 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200010159 Helix-turn-helix domain; Region: HTH_18; pfam12833 246200010160 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 246200010161 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 246200010162 DNA binding site [nucleotide binding] 246200010163 active site 246200010164 Helix-turn-helix domains; Region: HTH; cl00088 246200010165 Isochorismatase family; Region: Isochorismatase; pfam00857 246200010166 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 246200010167 catalytic triad [active] 246200010168 conserved cis-peptide bond; other site 246200010169 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 246200010170 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 246200010171 minor groove reading motif; other site 246200010172 helix-hairpin-helix signature motif; other site 246200010173 substrate binding pocket [chemical binding]; other site 246200010174 active site 246200010175 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 246200010176 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 246200010177 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 246200010178 substrate binding site [chemical binding]; other site 246200010179 ATP binding site [chemical binding]; other site 246200010180 Helix-turn-helix domains; Region: HTH; cl00088 246200010181 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 246200010182 EamA-like transporter family; Region: EamA; cl01037 246200010183 EamA-like transporter family; Region: EamA; cl01037 246200010184 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 246200010185 putative active site [active] 246200010186 Ap4A binding site [chemical binding]; other site 246200010187 nudix motif; other site 246200010188 putative metal binding site [ion binding]; other site 246200010189 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 246200010190 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 246200010191 active site 246200010192 FMN binding site [chemical binding]; other site 246200010193 2,4-decadienoyl-CoA binding site; other site 246200010194 catalytic residue [active] 246200010195 4Fe-4S cluster binding site [ion binding]; other site 246200010196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200010197 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 246200010198 NIPSNAP; Region: NIPSNAP; pfam07978 246200010199 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 246200010200 Membrane transport protein; Region: Mem_trans; cl09117 246200010201 transcriptional regulator; Provisional; Region: PRK10632 246200010202 Helix-turn-helix domains; Region: HTH; cl00088 246200010203 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 246200010204 putative effector binding pocket; other site 246200010205 dimerization interface [polypeptide binding]; other site 246200010206 Sulfatase; Region: Sulfatase; cl10460 246200010207 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 246200010208 phenylalanyl-tRNA synthetase, alpha subunit; Region: pheS; TIGR00468 246200010209 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 246200010210 dimer interface [polypeptide binding]; other site 246200010211 motif 1; other site 246200010212 active site 246200010213 motif 2; other site 246200010214 motif 3; other site 246200010215 Cupin domain; Region: Cupin_2; cl09118 246200010216 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 246200010217 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 246200010218 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200010219 probable polyamine oxidase; Region: PLN02268 246200010220 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 246200010221 23S rRNA binding site [nucleotide binding]; other site 246200010222 L21 binding site [polypeptide binding]; other site 246200010223 L13 binding site [polypeptide binding]; other site 246200010224 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 246200010225 pyruvate kinase; Provisional; Region: PRK06247 246200010226 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 246200010227 domain interfaces; other site 246200010228 active site 246200010229 N-formylglutamate amidohydrolase; Region: FGase; cl01522 246200010230 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 246200010231 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 246200010232 CoenzymeA binding site [chemical binding]; other site 246200010233 subunit interaction site [polypeptide binding]; other site 246200010234 PHB binding site; other site 246200010235 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 246200010236 homodimer interface [polypeptide binding]; other site 246200010237 substrate-cofactor binding pocket; other site 246200010238 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200010239 Aminotransferase class IV; Region: Aminotran_4; pfam01063 246200010240 catalytic residue [active] 246200010241 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 246200010242 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 246200010243 active site 246200010244 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 246200010245 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 246200010246 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 246200010247 classical (c) SDRs; Region: SDR_c; cd05233 246200010248 NAD(P) binding site [chemical binding]; other site 246200010249 active site 246200010250 PA14 domain; Region: PA14; cl08459 246200010251 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200010252 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 246200010253 putative DNA binding site [nucleotide binding]; other site 246200010254 putative Zn2+ binding site [ion binding]; other site 246200010255 Helix-turn-helix domains; Region: HTH; cl00088 246200010256 LysE type translocator; Region: LysE; cl00565 246200010257 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 246200010258 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 246200010259 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200010260 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 246200010261 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 246200010262 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; cl14780 246200010263 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 246200010264 lytic murein transglycosylase; Region: MltB_2; TIGR02283 246200010265 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 246200010266 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 246200010267 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 246200010268 dimer interface [polypeptide binding]; other site 246200010269 conserved gate region; other site 246200010270 putative PBP binding loops; other site 246200010271 ABC-ATPase subunit interface; other site 246200010272 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 246200010273 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 246200010274 Walker A/P-loop; other site 246200010275 ATP binding site [chemical binding]; other site 246200010276 Q-loop/lid; other site 246200010277 ABC transporter signature motif; other site 246200010278 Walker B; other site 246200010279 D-loop; other site 246200010280 H-loop/switch region; other site 246200010281 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 246200010282 Transcriptional regulators [Transcription]; Region: GntR; COG1802 246200010283 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200010284 DNA-binding site [nucleotide binding]; DNA binding site 246200010285 FCD domain; Region: FCD; cl11656 246200010286 Protein of unknown function DUF45; Region: DUF45; cl00636 246200010287 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; cl15701 246200010288 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 246200010289 DNA-binding site [nucleotide binding]; DNA binding site 246200010290 RNA-binding motif; other site 246200010291 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 246200010292 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200010293 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 246200010294 RNA methyltransferase, RsmE family; Region: TIGR00046 246200010295 UbiA prenyltransferase family; Region: UbiA; cl00337 246200010296 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 246200010297 ligand binding site [chemical binding]; other site 246200010298 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 246200010299 MoaE homodimer interface [polypeptide binding]; other site 246200010300 MoaD interaction [polypeptide binding]; other site 246200010301 active site residues [active] 246200010302 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 246200010303 MoaE interaction surface [polypeptide binding]; other site 246200010304 MoeB interaction surface [polypeptide binding]; other site 246200010305 thiocarboxylated glycine; other site 246200010306 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 246200010307 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 246200010308 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 246200010309 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 246200010310 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 246200010311 GIY-YIG motif/motif A; other site 246200010312 active site 246200010313 catalytic site [active] 246200010314 putative DNA binding site [nucleotide binding]; other site 246200010315 metal binding site [ion binding]; metal-binding site 246200010316 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 246200010317 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200010318 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 246200010319 NAD(P) binding site [chemical binding]; other site 246200010320 active site 246200010321 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 246200010322 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 246200010323 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 246200010324 tandem repeat interface [polypeptide binding]; other site 246200010325 oligomer interface [polypeptide binding]; other site 246200010326 active site residues [active] 246200010327 ABC-2 type transporter; Region: ABC2_membrane; cl11417 246200010328 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 246200010329 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200010330 Walker A/P-loop; other site 246200010331 ATP binding site [chemical binding]; other site 246200010332 Q-loop/lid; other site 246200010333 ABC transporter signature motif; other site 246200010334 Walker B; other site 246200010335 D-loop; other site 246200010336 H-loop/switch region; other site 246200010337 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 246200010338 putative hydrophobic ligand binding site [chemical binding]; other site 246200010339 EamA-like transporter family; Region: EamA; cl01037 246200010340 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 246200010341 EamA-like transporter family; Region: EamA; cl01037 246200010342 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 246200010343 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200010344 Helix-turn-helix domains; Region: HTH; cl00088 246200010345 enoyl-CoA hydratase; Provisional; Region: PRK08272 246200010346 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 246200010347 substrate binding site [chemical binding]; other site 246200010348 oxyanion hole (OAH) forming residues; other site 246200010349 trimer interface [polypeptide binding]; other site 246200010350 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 246200010351 CoA-transferase family III; Region: CoA_transf_3; pfam02515 246200010352 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 246200010353 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 246200010354 substrate binding site [chemical binding]; other site 246200010355 active site 246200010356 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 246200010357 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 246200010358 domain interfaces; other site 246200010359 active site 246200010360 cyclase homology domain; Region: CHD; cd07302 246200010361 nucleotidyl binding site; other site 246200010362 metal binding site [ion binding]; metal-binding site 246200010363 dimer interface [polypeptide binding]; other site 246200010364 TolB amino-terminal domain; Region: TolB_N; cl00639 246200010365 invasion protein regulator; Provisional; Region: PRK12370 246200010366 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 246200010367 Fatty acid desaturase; Region: FA_desaturase; pfam00487 246200010368 putative di-iron ligands [ion binding]; other site 246200010369 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 246200010370 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl00433 246200010371 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 246200010372 classical (c) SDRs; Region: SDR_c; cd05233 246200010373 NAD(P) binding site [chemical binding]; other site 246200010374 active site 246200010375 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 246200010376 MgtC family; Region: MgtC; cl12207 246200010377 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 246200010378 S-adenosylmethionine binding site [chemical binding]; other site 246200010379 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 246200010380 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 246200010381 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 246200010382 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 246200010383 LamB/YcsF family; Region: LamB_YcsF; cl00664 246200010384 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 246200010385 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 246200010386 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 246200010387 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200010388 DctM-like transporters; Region: DctM; pfam06808 246200010389 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200010390 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200010391 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200010392 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200010393 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200010394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200010395 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 246200010396 octamer interface [polypeptide binding]; other site 246200010397 active site 246200010398 Helix-turn-helix domains; Region: HTH; cl00088 246200010399 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 246200010400 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 246200010401 dimerization interface [polypeptide binding]; other site 246200010402 Transglycosylase; Region: Transgly; cl07896 246200010403 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 246200010404 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 246200010405 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 246200010406 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 246200010407 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; cd00081 246200010408 Protein of unknown function (DUF1557); Region: DUF1557; pfam07591 246200010409 thioester formation/cholesterol transfer; other site 246200010410 protein-splicing catalytic site; other site 246200010411 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200010412 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 246200010413 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200010414 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200010415 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 246200010416 Peptidase M15; Region: Peptidase_M15_3; cl01194 246200010417 acetylornithine deacetylase (ArgE); Region: AcOrn-deacetyl; TIGR01892 246200010418 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 246200010419 metal binding site [ion binding]; metal-binding site 246200010420 putative dimer interface [polypeptide binding]; other site 246200010421 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200010422 Helix-turn-helix domains; Region: HTH; cl00088 246200010423 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 246200010424 putative substrate binding pocket [chemical binding]; other site 246200010425 dimerization interface [polypeptide binding]; other site 246200010426 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 246200010427 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 246200010428 [2Fe-2S] cluster binding site [ion binding]; other site 246200010429 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_1; cd08885 246200010430 putative alpha subunit interface [polypeptide binding]; other site 246200010431 putative active site [active] 246200010432 putative substrate binding site [chemical binding]; other site 246200010433 Fe binding site [ion binding]; other site 246200010434 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 246200010435 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 246200010436 homotrimer interaction site [polypeptide binding]; other site 246200010437 putative active site [active] 246200010438 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 246200010439 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 246200010440 [2Fe-2S] cluster binding site [ion binding]; other site 246200010441 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_1; cd08885 246200010442 putative alpha subunit interface [polypeptide binding]; other site 246200010443 putative active site [active] 246200010444 putative substrate binding site [chemical binding]; other site 246200010445 Fe binding site [ion binding]; other site 246200010446 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 246200010447 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200010448 Transcriptional regulators [Transcription]; Region: PurR; COG1609 246200010449 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 246200010450 DNA binding site [nucleotide binding] 246200010451 domain linker motif; other site 246200010452 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 246200010453 putative dimerization interface [polypeptide binding]; other site 246200010454 putative ligand binding site [chemical binding]; other site 246200010455 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 246200010456 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 246200010457 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 246200010458 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 246200010459 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 246200010460 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 246200010461 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200010462 catalytic residue [active] 246200010463 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 246200010464 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 246200010465 tetramer interface [polypeptide binding]; other site 246200010466 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 246200010467 tetramer interface [polypeptide binding]; other site 246200010468 active site 246200010469 metal binding site [ion binding]; metal-binding site 246200010470 Helix-turn-helix domains; Region: HTH; cl00088 246200010471 Transcriptional regulators [Transcription]; Region: MarR; COG1846 246200010472 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 246200010473 Cupin domain; Region: Cupin_2; cl09118 246200010474 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 246200010475 salicylate hydroxylase; Provisional; Region: PRK08163 246200010476 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200010477 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200010478 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200010479 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200010480 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200010481 feruloyl-CoA synthase; Reviewed; Region: PRK08180 246200010482 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200010483 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 246200010484 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200010485 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200010486 Domain of unknown function (DUF309); Region: DUF309; cl00667 246200010487 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 246200010488 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 246200010489 substrate binding site [chemical binding]; other site 246200010490 oxyanion hole (OAH) forming residues; other site 246200010491 trimer interface [polypeptide binding]; other site 246200010492 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 246200010493 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 246200010494 4Fe-4S binding domain; Region: Fer4; cl02805 246200010495 These ferredoxin reductases are related to the NADPH cytochrome p450 reductases (CYPOR), but lack the FAD-binding region connecting sub-domain. Ferredoxin-NADP+ reductase (FNR) is an FAD-containing enzyme that catalyzes the reversible electron transfer...; Region: CYPOR_like_FNR; cd06208 246200010496 dimerization interface [polypeptide binding]; other site 246200010497 FAD binding pocket [chemical binding]; other site 246200010498 FAD binding motif [chemical binding]; other site 246200010499 catalytic residues [active] 246200010500 NAD binding pocket [chemical binding]; other site 246200010501 phosphate binding motif [ion binding]; other site 246200010502 beta-alpha-beta structure motif; other site 246200010503 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 246200010504 Helix-turn-helix domains; Region: HTH; cl00088 246200010505 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 246200010506 ADP binding site [chemical binding]; other site 246200010507 magnesium binding site [ion binding]; other site 246200010508 putative shikimate binding site; other site 246200010509 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 246200010510 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 246200010511 putative ligand binding site [chemical binding]; other site 246200010512 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200010513 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 246200010514 Walker A/P-loop; other site 246200010515 ATP binding site [chemical binding]; other site 246200010516 Q-loop/lid; other site 246200010517 ABC transporter signature motif; other site 246200010518 Walker B; other site 246200010519 D-loop; other site 246200010520 H-loop/switch region; other site 246200010521 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200010522 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 246200010523 Walker A/P-loop; other site 246200010524 ATP binding site [chemical binding]; other site 246200010525 Q-loop/lid; other site 246200010526 ABC transporter signature motif; other site 246200010527 Walker B; other site 246200010528 D-loop; other site 246200010529 H-loop/switch region; other site 246200010530 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 246200010531 TM-ABC transporter signature motif; other site 246200010532 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 246200010533 TM-ABC transporter signature motif; other site 246200010534 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 246200010535 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 246200010536 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200010537 putative substrate translocation pore; other site 246200010538 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 246200010539 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200010540 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 246200010541 conserved hypothetical protein; Region: TIGR02231 246200010542 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 246200010543 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 246200010544 active site clefts [active] 246200010545 zinc binding site [ion binding]; other site 246200010546 dimer interface [polypeptide binding]; other site 246200010547 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 246200010548 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 246200010549 interface (dimer of trimers) [polypeptide binding]; other site 246200010550 Substrate-binding/catalytic site; other site 246200010551 Zn-binding sites [ion binding]; other site 246200010552 NlpC/P60 family; Region: NLPC_P60; cl11438 246200010553 3-mercaptopyruvate sulfurtransferase; Region: PLN02723 246200010554 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 246200010555 active site residue [active] 246200010556 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 246200010557 active site residue [active] 246200010558 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 246200010559 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 246200010560 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200010561 homodimer interface [polypeptide binding]; other site 246200010562 catalytic residue [active] 246200010563 Predicted transcriptional regulator [Transcription]; Region: COG1959 246200010564 Helix-turn-helix domains; Region: HTH; cl00088 246200010565 Helix-turn-helix domains; Region: HTH; cl00088 246200010566 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 246200010567 Nitrogen regulatory protein P-II; Region: P-II; cl00412 246200010568 Transglycosylase; Region: Transgly; cl07896 246200010569 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 246200010570 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 246200010571 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; cl01074 246200010572 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 246200010573 VacJ like lipoprotein; Region: VacJ; cl01073 246200010574 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 246200010575 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 246200010576 This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain. They export...; Region: ABCC_Protease_Secretion; cd03246 246200010577 Walker A/P-loop; other site 246200010578 ATP binding site [chemical binding]; other site 246200010579 Q-loop/lid; other site 246200010580 ABC transporter signature motif; other site 246200010581 Walker B; other site 246200010582 D-loop; other site 246200010583 H-loop/switch region; other site 246200010584 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 246200010585 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 246200010586 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 246200010587 homotrimer interaction site [polypeptide binding]; other site 246200010588 putative active site [active] 246200010589 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 246200010590 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 246200010591 active site 246200010592 catalytic site [active] 246200010593 FemAB family; Region: FemAB; cl11444 246200010594 Protein of unknown function, DUF482; Region: DUF482; pfam04339 246200010595 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_subfamily_b; cd00914 246200010596 aromatic arch; other site 246200010597 DCoH dimer interaction site [polypeptide binding]; other site 246200010598 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 246200010599 DCoH tetramer interaction site [polypeptide binding]; other site 246200010600 substrate binding site [chemical binding]; other site 246200010601 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 246200010602 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 246200010603 DNA binding residues [nucleotide binding] 246200010604 putative dimer interface [polypeptide binding]; other site 246200010605 putative metal binding residues [ion binding]; other site 246200010606 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 246200010607 putative substrate translocation pore; other site 246200010608 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 246200010609 catalytic triad [active] 246200010610 dimer interface [polypeptide binding]; other site 246200010611 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 246200010612 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 246200010613 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200010614 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 246200010615 S-adenosylmethionine binding site [chemical binding]; other site 246200010616 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 246200010617 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; cl00668 246200010618 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 246200010619 SelR domain; Region: SelR; cl00369 246200010620 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 246200010621 catalytic residues [active] 246200010622 dimer interface [polypeptide binding]; other site 246200010623 EamA-like transporter family; Region: EamA; cl01037 246200010624 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 246200010625 IHF dimer interface [polypeptide binding]; other site 246200010626 IHF - DNA interface [nucleotide binding]; other site 246200010627 AMP nucleosidase; Provisional; Region: PRK08292 246200010628 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 246200010629 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 246200010630 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 246200010631 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 246200010632 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 246200010633 active site 246200010634 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 246200010635 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 246200010636 active site 246200010637 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200010638 Helix-turn-helix domains; Region: HTH; cl00088 246200010639 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 246200010640 dimerization interface [polypeptide binding]; other site 246200010641 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 246200010642 intersubunit interface [polypeptide binding]; other site 246200010643 active site 246200010644 Zn2+ binding site [ion binding]; other site 246200010645 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 246200010646 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 246200010647 Ligand Binding Site [chemical binding]; other site 246200010648 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 246200010649 active site 246200010650 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 246200010651 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 246200010652 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 246200010653 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 246200010654 S-adenosylmethionine binding site [chemical binding]; other site 246200010655 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 246200010656 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 246200010657 putative NAD(P) binding site [chemical binding]; other site 246200010658 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 246200010659 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 246200010660 ligand binding site [chemical binding]; other site 246200010661 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 246200010662 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 246200010663 Predicted acetyltransferase [General function prediction only]; Region: COG3393 246200010664 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200010665 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 246200010666 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 246200010667 putative MPT binding site; other site 246200010668 Sugar fermentation stimulation protein; Region: SfsA; cl00647 246200010669 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 246200010670 active site 246200010671 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 246200010672 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 246200010673 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 246200010674 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 246200010675 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 246200010676 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200010677 C-terminal domain interface [polypeptide binding]; other site 246200010678 GSH binding site (G-site) [chemical binding]; other site 246200010679 dimer interface [polypeptide binding]; other site 246200010680 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 246200010681 N-terminal domain interface [polypeptide binding]; other site 246200010682 dimer interface [polypeptide binding]; other site 246200010683 substrate binding pocket (H-site) [chemical binding]; other site 246200010684 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 246200010685 Transglycosylase; Region: Transgly; cl07896 246200010686 Hint domain; Region: Hint_2; pfam13403 246200010687 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 246200010688 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 246200010689 active site 246200010690 dimer interface [polypeptide binding]; other site 246200010691 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 246200010692 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 246200010693 active site 246200010694 FMN binding site [chemical binding]; other site 246200010695 substrate binding site [chemical binding]; other site 246200010696 3Fe-4S cluster binding site [ion binding]; other site 246200010697 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 246200010698 domain interface; other site 246200010699 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 246200010700 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 246200010701 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200010702 Bacitracin resistance protein BacA; Region: BacA; cl00858 246200010703 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 246200010704 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 246200010705 putative NAD(P) binding site [chemical binding]; other site 246200010706 active site 246200010707 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200010708 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_2; cd08498 246200010709 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200010710 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 246200010711 dimer interface [polypeptide binding]; other site 246200010712 conserved gate region; other site 246200010713 putative PBP binding loops; other site 246200010714 ABC-ATPase subunit interface; other site 246200010715 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 246200010716 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 246200010717 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 246200010718 dimer interface [polypeptide binding]; other site 246200010719 conserved gate region; other site 246200010720 putative PBP binding loops; other site 246200010721 ABC-ATPase subunit interface; other site 246200010722 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 246200010723 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 246200010724 Walker A/P-loop; other site 246200010725 ATP binding site [chemical binding]; other site 246200010726 Q-loop/lid; other site 246200010727 ABC transporter signature motif; other site 246200010728 Walker B; other site 246200010729 D-loop; other site 246200010730 H-loop/switch region; other site 246200010731 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200010732 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 246200010733 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 246200010734 Walker A/P-loop; other site 246200010735 ATP binding site [chemical binding]; other site 246200010736 Q-loop/lid; other site 246200010737 ABC transporter signature motif; other site 246200010738 Walker B; other site 246200010739 D-loop; other site 246200010740 H-loop/switch region; other site 246200010741 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200010742 cell density-dependent motility repressor; Provisional; Region: PRK10082 246200010743 Helix-turn-helix domains; Region: HTH; cl00088 246200010744 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 246200010745 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 246200010746 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 246200010747 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 246200010748 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 246200010749 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 246200010750 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200010751 Walker A/P-loop; other site 246200010752 ATP binding site [chemical binding]; other site 246200010753 Q-loop/lid; other site 246200010754 ABC transporter signature motif; other site 246200010755 Walker B; other site 246200010756 D-loop; other site 246200010757 H-loop/switch region; other site 246200010758 TOBE domain; Region: TOBE_2; cl01440 246200010759 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 246200010760 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200010761 Walker A/P-loop; other site 246200010762 ATP binding site [chemical binding]; other site 246200010763 Q-loop/lid; other site 246200010764 ABC transporter signature motif; other site 246200010765 Walker B; other site 246200010766 D-loop; other site 246200010767 H-loop/switch region; other site 246200010768 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 246200010769 dimer interface [polypeptide binding]; other site 246200010770 conserved gate region; other site 246200010771 putative PBP binding loops; other site 246200010772 ABC-ATPase subunit interface; other site 246200010773 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 246200010774 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 246200010775 dimer interface [polypeptide binding]; other site 246200010776 conserved gate region; other site 246200010777 putative PBP binding loops; other site 246200010778 ABC-ATPase subunit interface; other site 246200010779 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 246200010780 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 246200010781 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 246200010782 GAF domain; Region: GAF; cl00853 246200010783 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 246200010784 Walker A motif; other site 246200010785 ATP binding site [chemical binding]; other site 246200010786 Walker B motif; other site 246200010787 arginine finger; other site 246200010788 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 246200010789 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 246200010790 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 246200010791 E3 interaction surface; other site 246200010792 lipoyl attachment site [posttranslational modification]; other site 246200010793 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 246200010794 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 246200010795 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 246200010796 alpha subunit interface [polypeptide binding]; other site 246200010797 TPP binding site [chemical binding]; other site 246200010798 heterodimer interface [polypeptide binding]; other site 246200010799 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 246200010800 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 246200010801 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 246200010802 tetramer interface [polypeptide binding]; other site 246200010803 TPP-binding site [chemical binding]; other site 246200010804 heterodimer interface [polypeptide binding]; other site 246200010805 phosphorylation loop region [posttranslational modification] 246200010806 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 246200010807 Protein of unknown function (DUF779); Region: DUF779; cl01432 246200010808 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 246200010809 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 246200010810 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 246200010811 Helix-turn-helix domains; Region: HTH; cl00088 246200010812 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 246200010813 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200010814 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 246200010815 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200010816 active site 246200010817 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 246200010818 enoyl-CoA hydratase; Provisional; Region: PRK08150 246200010819 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 246200010820 substrate binding site [chemical binding]; other site 246200010821 oxyanion hole (OAH) forming residues; other site 246200010822 trimer interface [polypeptide binding]; other site 246200010823 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 246200010824 SmpB-tmRNA interface; other site 246200010825 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 246200010826 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 246200010827 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 246200010828 dimerization interface [polypeptide binding]; other site 246200010829 putative DNA binding site [nucleotide binding]; other site 246200010830 putative Zn2+ binding site [ion binding]; other site 246200010831 Sulfatase; Region: Sulfatase; cl10460 246200010832 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 246200010833 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 246200010834 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 246200010835 C-terminal peptidase (prc); Region: prc; TIGR00225 246200010836 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 246200010837 protein binding site [polypeptide binding]; other site 246200010838 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 246200010839 Catalytic dyad [active] 246200010840 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 246200010841 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 246200010842 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 246200010843 Walker A/P-loop; other site 246200010844 ATP binding site [chemical binding]; other site 246200010845 Q-loop/lid; other site 246200010846 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200010847 Q-loop/lid; other site 246200010848 ABC transporter signature motif; other site 246200010849 Walker B; other site 246200010850 D-loop; other site 246200010851 H-loop/switch region; other site 246200010852 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 246200010853 ligand binding site [chemical binding]; other site 246200010854 flexible hinge region; other site 246200010855 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 246200010856 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 246200010857 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; cl14780 246200010858 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 246200010859 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 246200010860 Predicted ATPase [General function prediction only]; Region: COG1485 246200010861 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 246200010862 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200010863 putative substrate translocation pore; other site 246200010864 ornithine cyclodeaminase; Validated; Region: PRK06141 246200010865 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200010866 NAD(P) binding pocket [chemical binding]; other site 246200010867 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 246200010868 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 246200010869 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 246200010870 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 246200010871 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 246200010872 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 246200010873 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 246200010874 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 246200010875 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200010876 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200010877 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 246200010878 Predicted esterase [General function prediction only]; Region: COG0627 246200010879 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 246200010880 peptidase T; Region: peptidase-T; TIGR01882 246200010881 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 246200010882 metal binding site [ion binding]; metal-binding site 246200010883 dimer interface [polypeptide binding]; other site 246200010884 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200010885 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 246200010886 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200010887 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 246200010888 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200010889 ATP binding site [chemical binding]; other site 246200010890 putative Mg++ binding site [ion binding]; other site 246200010891 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 246200010892 nucleotide binding region [chemical binding]; other site 246200010893 ATP-binding site [chemical binding]; other site 246200010894 DbpA RNA binding domain; Region: DbpA; pfam03880 246200010895 dihydrodipicolinate reductase; Provisional; Region: PRK00048 246200010896 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200010897 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 246200010898 Ribosome-binding factor A; Region: RBFA; cl00542 246200010899 Predicted periplasmic protein (DUF2233); Region: DUF2233; cl10481 246200010900 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 246200010901 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 246200010902 RNA binding site [nucleotide binding]; other site 246200010903 active site 246200010904 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 246200010905 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200010906 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 246200010907 16S/18S rRNA binding site [nucleotide binding]; other site 246200010908 S13e-L30e interaction site [polypeptide binding]; other site 246200010909 25S rRNA binding site [nucleotide binding]; other site 246200010910 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200010911 Helix-turn-helix domains; Region: HTH; cl00088 246200010912 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 246200010913 diiron binding motif [ion binding]; other site 246200010914 Uncharacterized conserved protein [Function unknown]; Region: COG1633 246200010915 CCC1-related protein family; Region: CCC1_like_1; cd02437 246200010916 Membrane transport protein; Region: Mem_trans; cl09117 246200010917 DNA polymerase I; Provisional; Region: PRK05755 246200010918 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 246200010919 active site 246200010920 metal binding site 1 [ion binding]; metal-binding site 246200010921 putative 5' ssDNA interaction site; other site 246200010922 metal binding site 3; metal-binding site 246200010923 metal binding site 2 [ion binding]; metal-binding site 246200010924 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 246200010925 putative DNA binding site [nucleotide binding]; other site 246200010926 putative metal binding site [ion binding]; other site 246200010927 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 246200010928 active site 246200010929 catalytic site [active] 246200010930 substrate binding site [chemical binding]; other site 246200010931 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 246200010932 active site 246200010933 DNA binding site [nucleotide binding] 246200010934 catalytic site [active] 246200010935 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 246200010936 Zinc-finger domain; Region: zf-CHCC; cl01821 246200010937 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200010938 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 246200010939 Walker A/P-loop; other site 246200010940 ATP binding site [chemical binding]; other site 246200010941 Q-loop/lid; other site 246200010942 ABC transporter signature motif; other site 246200010943 Walker B; other site 246200010944 D-loop; other site 246200010945 H-loop/switch region; other site 246200010946 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 246200010947 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 246200010948 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 246200010949 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 246200010950 substrate binding site [chemical binding]; other site 246200010951 catalytic Zn binding site [ion binding]; other site 246200010952 NAD binding site [chemical binding]; other site 246200010953 structural Zn binding site [ion binding]; other site 246200010954 dimer interface [polypeptide binding]; other site 246200010955 HemY protein N-terminus; Region: HemY_N; pfam07219 246200010956 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 246200010957 Nucleopolyhedrovirus P10 protein; Region: NPV_P10; pfam05531 246200010958 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 246200010959 active site 246200010960 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 246200010961 UGMP family protein; Validated; Region: PRK09604 246200010962 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 246200010963 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 246200010964 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200010965 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 246200010966 YCII-related domain; Region: YCII; cl00999 246200010967 EVE domain; Region: EVE; cl00728 246200010968 Protein of unknown function (DUF1761); Region: DUF1761; pfam08570 246200010969 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 246200010970 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 246200010971 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 246200010972 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 246200010973 oligomerization interface [polypeptide binding]; other site 246200010974 active site 246200010975 NAD+ binding site [chemical binding]; other site 246200010976 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 246200010977 Protein of unknown function (DUF563); Region: DUF563; cl15705 246200010978 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 246200010979 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 246200010980 active site 246200010981 phosphorylation site [posttranslational modification] 246200010982 intermolecular recognition site; other site 246200010983 dimerization interface [polypeptide binding]; other site 246200010984 Helix-turn-helix domains; Region: HTH; cl00088 246200010985 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 246200010986 Cu(I) binding site [ion binding]; other site 246200010987 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 246200010988 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 246200010989 dimer interface [polypeptide binding]; other site 246200010990 phosphorylation site [posttranslational modification] 246200010991 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 246200010992 ATP binding site [chemical binding]; other site 246200010993 Mg2+ binding site [ion binding]; other site 246200010994 G-X-G motif; other site 246200010995 PAS fold; Region: PAS_7; pfam12860 246200010996 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 246200010997 Phosphotransferase enzyme family; Region: APH; pfam01636 246200010998 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 246200010999 active site 246200011000 ATP binding site [chemical binding]; other site 246200011001 substrate binding site [chemical binding]; other site 246200011002 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 246200011003 Substrate binding site; other site 246200011004 metal-binding site 246200011005 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 246200011006 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 246200011007 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 246200011008 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200011009 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 246200011010 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200011011 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 246200011012 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 246200011013 catalytic residues [active] 246200011014 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 246200011015 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; cl09807 246200011016 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 246200011017 dimerization interface [polypeptide binding]; other site 246200011018 putative DNA binding site [nucleotide binding]; other site 246200011019 putative Zn2+ binding site [ion binding]; other site 246200011020 Low molecular weight phosphatase family; Region: LMWPc; cd00115 246200011021 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 246200011022 active site 246200011023 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 246200011024 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 246200011025 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 246200011026 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 246200011027 active site 246200011028 HslU subunit interaction site [polypeptide binding]; other site 246200011029 Electron transfer DM13; Region: DM13; cl02735 246200011030 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 246200011031 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 246200011032 Walker A motif; other site 246200011033 ATP binding site [chemical binding]; other site 246200011034 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200011035 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 246200011036 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 246200011037 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 246200011038 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 246200011039 Smr domain; Region: Smr; cl02619 246200011040 MltA specific insert domain; Region: MltA; cl08398 246200011041 3D domain; Region: 3D; cl01439 246200011042 Tim44-like domain; Region: Tim44; cl09208 246200011043 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 246200011044 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 246200011045 SecA binding site; other site 246200011046 Preprotein binding site; other site 246200011047 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 246200011048 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 246200011049 active site 246200011050 substrate binding site [chemical binding]; other site 246200011051 catalytic site [active] 246200011052 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 246200011053 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 246200011054 CoA-binding site [chemical binding]; other site 246200011055 ATP-binding [chemical binding]; other site 246200011056 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 246200011057 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 246200011058 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 246200011059 shikimate binding site; other site 246200011060 NAD(P) binding site [chemical binding]; other site 246200011061 Maf-like protein; Region: Maf; pfam02545 246200011062 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 246200011063 active site 246200011064 dimer interface [polypeptide binding]; other site 246200011065 Uncharacterised protein family (UPF0093); Region: UPF0093; cl00863 246200011066 transcription termination factor Rho; Provisional; Region: rho; PRK09376 246200011067 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 246200011068 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 246200011069 RNA binding site [nucleotide binding]; other site 246200011070 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 246200011071 multimer interface [polypeptide binding]; other site 246200011072 Walker A motif; other site 246200011073 ATP binding site [chemical binding]; other site 246200011074 Walker B motif; other site 246200011075 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 246200011076 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 246200011077 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200011078 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 246200011079 G1 box; other site 246200011080 Walker A/P-loop; other site 246200011081 GTP/Mg2+ binding site [chemical binding]; other site 246200011082 ATP binding site [chemical binding]; other site 246200011083 Switch I region; other site 246200011084 G2 box; other site 246200011085 Switch II region; other site 246200011086 G3 box; other site 246200011087 G4 box; other site 246200011088 G5 box; other site 246200011089 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 246200011090 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl02184 246200011091 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 246200011092 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 246200011093 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 246200011094 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 246200011095 FeS/SAM binding site; other site 246200011096 TRAM domain; Region: TRAM; cl01282 246200011097 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 246200011098 ligand binding site [chemical binding]; other site 246200011099 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 246200011100 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200011101 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 246200011102 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 246200011103 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 246200011104 Transporter associated domain; Region: CorC_HlyC; cl08393 246200011105 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 246200011106 putative active site [active] 246200011107 catalytic triad [active] 246200011108 putative dimer interface [polypeptide binding]; other site 246200011109 S-adenosylmethionine synthetase; Validated; Region: PRK05250 246200011110 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 246200011111 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 246200011112 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 246200011113 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 246200011114 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200011115 active site 246200011116 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; cl14780 246200011117 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; cl12011 246200011118 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 246200011119 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 246200011120 hinge; other site 246200011121 active site 246200011122 cytidylate kinase; Provisional; Region: cmk; PRK00023 246200011123 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 246200011124 CMP-binding site; other site 246200011125 The sites determining sugar specificity; other site 246200011126 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 246200011127 Protein of unknown function (DUF819); Region: DUF819; cl02317 246200011128 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 246200011129 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 3; Region: PLPDE_III_DSD_D-TA_like_3; cd06814 246200011130 dimer interface [polypeptide binding]; other site 246200011131 active site 246200011132 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 246200011133 substrate binding site [chemical binding]; other site 246200011134 catalytic residue [active] 246200011135 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 246200011136 FAD binding domain; Region: FAD_binding_4; pfam01565 246200011137 D-arabinono-1,4-lactone oxidase; Region: ALO; cl04370 246200011138 Cytochrome c; Region: Cytochrom_C; cl11414 246200011139 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200011140 Helix-turn-helix domains; Region: HTH; cl00088 246200011141 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 246200011142 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 246200011143 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 246200011144 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 246200011145 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 246200011146 putative active site [active] 246200011147 putative metal binding site [ion binding]; other site 246200011148 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200011149 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 246200011150 NAD binding site [chemical binding]; other site 246200011151 catalytic residues [active] 246200011152 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 246200011153 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 246200011154 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 246200011155 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 246200011156 FMN-binding domain; Region: FMN_bind; cl01081 246200011157 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrC [Energy production and conversion]; Region: NqrC; COG2869 246200011158 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 246200011159 Rnf-Nqr subunit, membrane protein; Region: Rnf-Nqr; cl00597 246200011160 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 246200011161 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 246200011162 catalytic loop [active] 246200011163 iron binding site [ion binding]; other site 246200011164 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 246200011165 FAD binding pocket [chemical binding]; other site 246200011166 FAD binding motif [chemical binding]; other site 246200011167 phosphate binding motif [ion binding]; other site 246200011168 beta-alpha-beta structure motif; other site 246200011169 NAD binding pocket [chemical binding]; other site 246200011170 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 246200011171 FOG: CBS domain [General function prediction only]; Region: COG0517 246200011172 ApbE family; Region: ApbE; cl00643 246200011173 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 246200011174 DNA binding residues [nucleotide binding] 246200011175 dimerization interface [polypeptide binding]; other site 246200011176 CrcB-like protein; Region: CRCB; cl09114 246200011177 Uncharacterized conserved protein [Function unknown]; Region: COG3246 246200011178 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 246200011179 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 246200011180 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 246200011181 heterodimer interface [polypeptide binding]; other site 246200011182 active site 246200011183 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl01383 246200011184 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 246200011185 active site 246200011186 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 246200011187 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 246200011188 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200011189 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 246200011190 Helix-turn-helix domains; Region: HTH; cl00088 246200011191 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 246200011192 dimerization interface [polypeptide binding]; other site 246200011193 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 246200011194 FMN-binding domain; Region: FMN_bind; cl01081 246200011195 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 246200011196 4Fe-4S binding domain; Region: Fer4_5; pfam12801 246200011197 nitrous-oxide reductase; Validated; Region: PRK02888 246200011198 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 246200011199 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 246200011200 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 246200011201 Periplasmic copper-binding protein (NosD); Region: NosD; pfam05048 246200011202 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 246200011203 This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity. In bacteria and archaea, these transporters usually include an ATP-binding...; Region: ABC_DR_subfamily_A; cd03230 246200011204 Walker A/P-loop; other site 246200011205 ATP binding site [chemical binding]; other site 246200011206 Q-loop/lid; other site 246200011207 ABC transporter signature motif; other site 246200011208 Walker B; other site 246200011209 D-loop; other site 246200011210 H-loop/switch region; other site 246200011211 ABC-2 type transporter; Region: ABC2_membrane; cl11417 246200011212 NosL; Region: NosL; cl01769 246200011213 Cytochrome c; Region: Cytochrom_C; cl11414 246200011214 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 246200011215 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 246200011216 non-specific DNA binding site [nucleotide binding]; other site 246200011217 salt bridge; other site 246200011218 sequence-specific DNA binding site [nucleotide binding]; other site 246200011219 Cupin domain; Region: Cupin_2; cl09118 246200011220 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 246200011221 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200011222 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 246200011223 lipoyl attachment site [posttranslational modification]; other site 246200011224 glycine dehydrogenase; Provisional; Region: PRK05367 246200011225 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 246200011226 tetramer interface [polypeptide binding]; other site 246200011227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200011228 catalytic residue [active] 246200011229 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 246200011230 tetramer interface [polypeptide binding]; other site 246200011231 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200011232 catalytic residue [active] 246200011233 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200011234 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 246200011235 conserved cys residue [active] 246200011236 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 246200011237 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 246200011238 dimer interface [polypeptide binding]; other site 246200011239 active site 246200011240 heme binding site [chemical binding]; other site 246200011241 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 246200011242 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200011243 aspartate racemase; Region: asp_race; TIGR00035 246200011244 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200011245 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200011246 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200011247 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200011248 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 246200011249 Amidinotransferase; Region: Amidinotransf; cl12043 246200011250 hypothetical protein; Provisional; Region: PRK07524 246200011251 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 246200011252 PYR/PP interface [polypeptide binding]; other site 246200011253 dimer interface [polypeptide binding]; other site 246200011254 TPP binding site [chemical binding]; other site 246200011255 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 246200011256 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 246200011257 TPP-binding site [chemical binding]; other site 246200011258 aspartate aminotransferase; Provisional; Region: PRK05764 246200011259 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 246200011260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200011261 homodimer interface [polypeptide binding]; other site 246200011262 catalytic residue [active] 246200011263 transcriptional regulator BetI; Validated; Region: PRK00767 246200011264 Helix-turn-helix domains; Region: HTH; cl00088 246200011265 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 246200011266 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200011267 Walker A/P-loop; other site 246200011268 ATP binding site [chemical binding]; other site 246200011269 Q-loop/lid; other site 246200011270 ABC transporter signature motif; other site 246200011271 Walker B; other site 246200011272 D-loop; other site 246200011273 H-loop/switch region; other site 246200011274 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 246200011275 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 246200011276 substrate binding pocket [chemical binding]; other site 246200011277 membrane-bound complex binding site; other site 246200011278 hinge residues; other site 246200011279 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 246200011280 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 246200011281 dimer interface [polypeptide binding]; other site 246200011282 conserved gate region; other site 246200011283 putative PBP binding loops; other site 246200011284 ABC-ATPase subunit interface; other site 246200011285 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 246200011286 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 246200011287 dimer interface [polypeptide binding]; other site 246200011288 conserved gate region; other site 246200011289 putative PBP binding loops; other site 246200011290 ABC-ATPase subunit interface; other site 246200011291 Uncharacterised protein family (UPF0262); Region: UPF0262; cl11489 246200011292 Low molecular weight phosphatase family; Region: LMWPc; cl00105 246200011293 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 246200011294 active site 246200011295 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 246200011296 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 246200011297 Predicted amidohydrolase [General function prediction only]; Region: COG0388 246200011298 putative active site [active] 246200011299 catalytic triad [active] 246200011300 putative dimer interface [polypeptide binding]; other site 246200011301 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 246200011302 rRNA binding site [nucleotide binding]; other site 246200011303 predicted 30S ribosome binding site; other site 246200011304 Maf-like protein; Region: Maf; pfam02545 246200011305 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 246200011306 active site 246200011307 dimer interface [polypeptide binding]; other site 246200011308 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 246200011309 Domain of unknown function (DUF329); Region: DUF329; cl01144 246200011310 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 246200011311 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 246200011312 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 246200011313 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 246200011314 non-specific DNA binding site [nucleotide binding]; other site 246200011315 salt bridge; other site 246200011316 sequence-specific DNA binding site [nucleotide binding]; other site 246200011317 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 246200011318 polymerase nucleotide-binding site; other site 246200011319 DNA-binding residues [nucleotide binding]; DNA binding site 246200011320 nucleotide binding site [chemical binding]; other site 246200011321 primase nucleotide-binding site [nucleotide binding]; other site 246200011322 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 246200011323 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 246200011324 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200011325 Walker A motif; other site 246200011326 ATP binding site [chemical binding]; other site 246200011327 Walker B motif; other site 246200011328 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 246200011329 Phage integrase family; Region: Phage_integrase; pfam00589 246200011330 active site 246200011331 Int/Topo IB signature motif; other site 246200011332 Flagellar P-ring protein; Region: FlgI; pfam02119 246200011333 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 246200011334 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 246200011335 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 246200011336 FAD binding domain; Region: FAD_binding_4; pfam01565 246200011337 Domain of unknown function (DUF4383); Region: DUF4383; pfam14325 246200011338 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 246200011339 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 246200011340 TM-ABC transporter signature motif; other site 246200011341 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 246200011342 TM-ABC transporter signature motif; other site 246200011343 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200011344 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 246200011345 Walker A/P-loop; other site 246200011346 ATP binding site [chemical binding]; other site 246200011347 Q-loop/lid; other site 246200011348 ABC transporter signature motif; other site 246200011349 Walker B; other site 246200011350 D-loop; other site 246200011351 H-loop/switch region; other site 246200011352 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200011353 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 246200011354 Walker A/P-loop; other site 246200011355 ATP binding site [chemical binding]; other site 246200011356 Q-loop/lid; other site 246200011357 ABC transporter signature motif; other site 246200011358 Walker B; other site 246200011359 D-loop; other site 246200011360 H-loop/switch region; other site 246200011361 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 246200011362 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_4; cd06337 246200011363 putative ligand binding site [chemical binding]; other site 246200011364 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 246200011365 DNA binding residues [nucleotide binding] 246200011366 dimerization interface [polypeptide binding]; other site 246200011367 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200011368 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 246200011369 NAD(P) binding site [chemical binding]; other site 246200011370 catalytic residues [active] 246200011371 Helix-turn-helix domains; Region: HTH; cl00088 246200011372 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 246200011373 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 246200011374 Helix-turn-helix domains; Region: HTH; cl00088 246200011375 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 246200011376 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 246200011377 dimerization interface [polypeptide binding]; other site 246200011378 substrate binding pocket [chemical binding]; other site 246200011379 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200011380 Helix-turn-helix domains; Region: HTH; cl00088 246200011381 Transcriptional regulators [Transcription]; Region: MarR; COG1846 246200011382 Helix-turn-helix domains; Region: HTH; cl00088 246200011383 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 246200011384 active site 246200011385 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 246200011386 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 246200011387 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 246200011388 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 246200011389 dimer interface [polypeptide binding]; other site 246200011390 PYR/PP interface [polypeptide binding]; other site 246200011391 TPP binding site [chemical binding]; other site 246200011392 substrate binding site [chemical binding]; other site 246200011393 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 246200011394 TPP-binding site; other site 246200011395 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 246200011396 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200011397 NAD(P) binding site [chemical binding]; other site 246200011398 catalytic residues [active] 246200011399 hypothetical protein; Provisional; Region: PRK07481 246200011400 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 246200011401 inhibitor-cofactor binding pocket; inhibition site 246200011402 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200011403 catalytic residue [active] 246200011404 Predicted amidohydrolase [General function prediction only]; Region: COG0388 246200011405 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 246200011406 putative active site [active] 246200011407 catalytic triad [active] 246200011408 putative dimer interface [polypeptide binding]; other site 246200011409 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 246200011410 Cupin domain; Region: Cupin_2; cl09118 246200011411 Cupin domain; Region: Cupin_2; cl09118 246200011412 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 246200011413 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 246200011414 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200011415 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 246200011416 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 246200011417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 246200011418 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 246200011419 Sulfatase; Region: Sulfatase; cl10460 246200011420 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 246200011421 CHAT domain; Region: CHAT; cl02083 246200011422 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200011423 Walker A/P-loop; other site 246200011424 ATP binding site [chemical binding]; other site 246200011425 Predicted ATP-binding protein involved in virulence [General function prediction only]; Region: COG3950 246200011426 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; cl00083 246200011427 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 246200011428 classical (c) SDRs; Region: SDR_c; cd05233 246200011429 NAD(P) binding site [chemical binding]; other site 246200011430 active site 246200011431 Putative cyclase; Region: Cyclase; cl00814 246200011432 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 246200011433 DUF35 OB-fold domain; Region: DUF35; pfam01796 246200011434 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 246200011435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200011436 NAD(P) binding site [chemical binding]; other site 246200011437 active site 246200011438 Acetyl-CoA acetyltransferase [Lipid metabolism]; Region: PaaJ; COG0183 246200011439 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 246200011440 active site 246200011441 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 246200011442 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200011443 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 246200011444 inter-subunit interface; other site 246200011445 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 246200011446 Rieske non-heme iron oxygenase (RO) family, Anthranilate 1,2-dioxygenase (AntDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_AntDO; cd03538 246200011447 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 246200011448 putative alpha subunit interface [polypeptide binding]; other site 246200011449 putative active site [active] 246200011450 putative substrate binding site [chemical binding]; other site 246200011451 Fe binding site [ion binding]; other site 246200011452 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 246200011453 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 246200011454 FMN-binding pocket [chemical binding]; other site 246200011455 flavin binding motif; other site 246200011456 phosphate binding motif [ion binding]; other site 246200011457 beta-alpha-beta structure motif; other site 246200011458 NAD binding pocket [chemical binding]; other site 246200011459 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 246200011460 catalytic loop [active] 246200011461 iron binding site [ion binding]; other site 246200011462 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 246200011463 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 246200011464 hinge; other site 246200011465 active site 246200011466 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 246200011467 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 246200011468 Coenzyme A binding pocket [chemical binding]; other site 246200011469 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 246200011470 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 246200011471 glutaminase active site [active] 246200011472 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 246200011473 dimer interface [polypeptide binding]; other site 246200011474 active site 246200011475 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 246200011476 dimer interface [polypeptide binding]; other site 246200011477 active site 246200011478 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 246200011479 RES domain; Region: RES; cl02411 246200011480 Helix-turn-helix domains; Region: HTH; cl00088 246200011481 Transcriptional regulator [Transcription]; Region: IclR; COG1414 246200011482 Bacterial transcriptional regulator; Region: IclR; pfam01614 246200011483 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 246200011484 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 246200011485 homodimer interface [polypeptide binding]; other site 246200011486 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200011487 catalytic residue [active] 246200011488 serine racemase; Region: PLN02970 246200011489 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 246200011490 tetramer interface [polypeptide binding]; other site 246200011491 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200011492 catalytic residue [active] 246200011493 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 246200011494 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 246200011495 dimer interface [polypeptide binding]; other site 246200011496 active site 246200011497 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 246200011498 substrate binding site [chemical binding]; other site 246200011499 catalytic residue [active] 246200011500 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200011501 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 246200011502 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200011503 DNA-binding site [nucleotide binding]; DNA binding site 246200011504 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 246200011505 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200011506 homodimer interface [polypeptide binding]; other site 246200011507 catalytic residue [active] 246200011508 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 246200011509 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 246200011510 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200011511 Cytochrome c; Region: Cytochrom_C; cl11414 246200011512 Cytochrome c; Region: Cytochrom_C; cl11414 246200011513 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 246200011514 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 246200011515 TPR motif; other site 246200011516 binding surface 246200011517 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 246200011518 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 246200011519 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200011520 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 246200011521 D-cysteine desulfhydrase; Validated; Region: PRK03910 246200011522 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 246200011523 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200011524 catalytic residue [active] 246200011525 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200011526 Helix-turn-helix domains; Region: HTH; cl00088 246200011527 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 246200011528 dimerization interface [polypeptide binding]; other site 246200011529 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200011530 DctM-like transporters; Region: DctM; pfam06808 246200011531 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 246200011532 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200011533 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 246200011534 homodimer interface [polypeptide binding]; other site 246200011535 NAD binding site [chemical binding]; other site 246200011536 catalytic residues [active] 246200011537 substrate binding pocket [chemical binding]; other site 246200011538 flexible flap; other site 246200011539 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 246200011540 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200011541 DNA-binding site [nucleotide binding]; DNA binding site 246200011542 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 246200011543 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200011544 homodimer interface [polypeptide binding]; other site 246200011545 catalytic residue [active] 246200011546 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200011547 Helix-turn-helix domains; Region: HTH; cl00088 246200011548 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 246200011549 dimerization interface [polypeptide binding]; other site 246200011550 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 246200011551 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 246200011552 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200011553 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200011554 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200011555 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 246200011556 MOSC domain; Region: MOSC; pfam03473 246200011557 Helix-turn-helix domains; Region: HTH; cl00088 246200011558 Hexameric tyrosine-coordinated heme protein (HTHP); Region: HTHP; pfam11534 246200011559 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 246200011560 MOSC domain; Region: MOSC; pfam03473 246200011561 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 246200011562 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 246200011563 FMN-binding pocket [chemical binding]; other site 246200011564 flavin binding motif; other site 246200011565 phosphate binding motif [ion binding]; other site 246200011566 beta-alpha-beta structure motif; other site 246200011567 NAD binding pocket [chemical binding]; other site 246200011568 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 246200011569 catalytic loop [active] 246200011570 iron binding site [ion binding]; other site 246200011571 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 246200011572 Helix-turn-helix domains; Region: HTH; cl00088 246200011573 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 246200011574 dimerization interface [polypeptide binding]; other site 246200011575 Cytochrome c; Region: Cytochrom_C; cl11414 246200011576 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 246200011577 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 246200011578 Cu(I) binding site [ion binding]; other site 246200011579 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 246200011580 D-pathway; other site 246200011581 Low-spin heme binding site [chemical binding]; other site 246200011582 Putative water exit pathway; other site 246200011583 Binuclear center (active site) [active] 246200011584 K-pathway; other site 246200011585 Putative proton exit pathway; other site 246200011586 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 246200011587 Helix-turn-helix domains; Region: HTH; cl00088 246200011588 Rrf2 family protein; Region: rrf2_super; TIGR00738 246200011589 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 246200011590 Cytochrome c; Region: Cytochrom_C; cl11414 246200011591 Cytochrome c; Region: Cytochrom_C; cl11414 246200011592 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 246200011593 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 246200011594 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 246200011595 Low-spin heme binding site [chemical binding]; other site 246200011596 Putative water exit pathway; other site 246200011597 Binuclear center (active site) [active] 246200011598 Putative proton exit pathway; other site 246200011599 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 246200011600 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 246200011601 heme-binding site [chemical binding]; other site 246200011602 CcmE; Region: CcmE; cl00994 246200011603 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 246200011604 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 246200011605 substrate-cofactor binding pocket; other site 246200011606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200011607 catalytic residue [active] 246200011608 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 246200011609 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 246200011610 Cytochrome C biogenesis protein; Region: CcmH; cl01179 246200011611 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 246200011612 catalytic residues [active] 246200011613 central insert; other site 246200011614 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 246200011615 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 246200011616 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200011617 DNA-binding site [nucleotide binding]; DNA binding site 246200011618 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 246200011619 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200011620 homodimer interface [polypeptide binding]; other site 246200011621 catalytic residue [active] 246200011622 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 246200011623 histidinol dehydrogenase; Region: hisD; TIGR00069 246200011624 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 246200011625 NAD binding site [chemical binding]; other site 246200011626 dimerization interface [polypeptide binding]; other site 246200011627 product binding site; other site 246200011628 substrate binding site [chemical binding]; other site 246200011629 zinc binding site [ion binding]; other site 246200011630 catalytic residues [active] 246200011631 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 246200011632 active site 246200011633 catalytic residues [active] 246200011634 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 246200011635 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 246200011636 ligand binding site [chemical binding]; other site 246200011637 flexible hinge region; other site 246200011638 Helix-turn-helix domains; Region: HTH; cl00088 246200011639 SAM domain (Sterile alpha motif); Region: SAM_2; pfam07647 246200011640 SAM (Sterile alpha motif ); Region: SAM_superfamily; cd09487 246200011641 TOMM system kinase/cyclase multidomain protein; Region: TOMM_kin_cyc; TIGR03903 246200011642 cyclase homology domain; Region: CHD; cd07302 246200011643 nucleotidyl binding site; other site 246200011644 metal binding site [ion binding]; metal-binding site 246200011645 dimer interface [polypeptide binding]; other site 246200011646 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 246200011647 FAD binding domain; Region: FAD_binding_4; pfam01565 246200011648 Berberine and berberine like; Region: BBE; pfam08031 246200011649 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200011650 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200011651 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 246200011652 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 246200011653 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 246200011654 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 246200011655 PhoU domain; Region: PhoU; pfam01895 246200011656 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 246200011657 Subunit I/III interface [polypeptide binding]; other site 246200011658 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 246200011659 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 246200011660 metal ion-dependent adhesion site (MIDAS); other site 246200011661 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200011662 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 246200011663 Walker A motif; other site 246200011664 ATP binding site [chemical binding]; other site 246200011665 Walker B motif; other site 246200011666 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 246200011667 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 246200011668 Binuclear center (active site) [active] 246200011669 K-pathway; other site 246200011670 Putative proton exit pathway; other site 246200011671 Putative water exit pathway; other site 246200011672 Cytochrome c; Region: Cytochrom_C; cl11414 246200011673 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 246200011674 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 246200011675 NnrS protein; Region: NnrS; cl01258 246200011676 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 246200011677 Cytochrome c; Region: Cytochrom_C; cl11414 246200011678 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 246200011679 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 246200011680 Cytochrome c; Region: Cytochrom_C; cl11414 246200011681 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 246200011682 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 246200011683 structural tetrad; other site 246200011684 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200011685 Helix-turn-helix domains; Region: HTH; cl00088 246200011686 Helix-turn-helix domains; Region: HTH; cl00088 246200011687 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200011688 Helix-turn-helix domains; Region: HTH; cl00088 246200011689 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 246200011690 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 246200011691 FeS/SAM binding site; other site 246200011692 radical SAM additional 4Fe4S-binding domain; Region: rSAM_more_4Fe4S; cl14869 246200011693 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 246200011694 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 246200011695 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200011696 Helix-turn-helix domains; Region: HTH; cl00088 246200011697 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 246200011698 dimerization interface [polypeptide binding]; other site 246200011699 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 246200011700 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 246200011701 This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these...; Region: ABC_Pro_Gly_Bertaine; cd03294 246200011702 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 246200011703 Walker A/P-loop; other site 246200011704 ATP binding site [chemical binding]; other site 246200011705 Q-loop/lid; other site 246200011706 ABC transporter signature motif; other site 246200011707 Walker B; other site 246200011708 D-loop; other site 246200011709 H-loop/switch region; other site 246200011710 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 246200011711 dimer interface [polypeptide binding]; other site 246200011712 conserved gate region; other site 246200011713 ABC-ATPase subunit interface; other site 246200011714 Arginase family; Region: Arginase; cl00306 246200011715 Arginase family; Region: Arginase; cl00306 246200011716 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 246200011717 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 246200011718 dimer interface [polypeptide binding]; other site 246200011719 phosphorylation site [posttranslational modification] 246200011720 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 246200011721 ATP binding site [chemical binding]; other site 246200011722 Mg2+ binding site [ion binding]; other site 246200011723 G-X-G motif; other site 246200011724 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 246200011725 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 246200011726 active site 246200011727 phosphorylation site [posttranslational modification] 246200011728 intermolecular recognition site; other site 246200011729 dimerization interface [polypeptide binding]; other site 246200011730 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 246200011731 Walker A motif; other site 246200011732 ATP binding site [chemical binding]; other site 246200011733 Walker B motif; other site 246200011734 arginine finger; other site 246200011735 Helix-turn-helix domains; Region: HTH; cl00088 246200011736 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200011737 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200011738 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200011739 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200011740 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 246200011741 Transcriptional regulators [Transcription]; Region: PurR; COG1609 246200011742 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 246200011743 DNA binding site [nucleotide binding] 246200011744 domain linker motif; other site 246200011745 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 246200011746 putative dimerization interface [polypeptide binding]; other site 246200011747 putative ligand binding site [chemical binding]; other site 246200011748 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 246200011749 dimer interface [polypeptide binding]; other site 246200011750 NADP binding site [chemical binding]; other site 246200011751 catalytic residues [active] 246200011752 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 246200011753 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 246200011754 inhibitor site; inhibition site 246200011755 active site 246200011756 dimer interface [polypeptide binding]; other site 246200011757 catalytic residue [active] 246200011758 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 246200011759 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 246200011760 putative active site pocket [active] 246200011761 putative metal binding site [ion binding]; other site 246200011762 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 246200011763 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 246200011764 Uncharacterized conserved protein [Function unknown]; Region: COG3391 246200011765 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 246200011766 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 246200011767 Domain of unknown function (DUF336); Region: DUF336; cl01249 246200011768 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200011769 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200011770 DctM-like transporters; Region: DctM; pfam06808 246200011771 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200011772 Transcriptional regulators [Transcription]; Region: PurR; COG1609 246200011773 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 246200011774 DNA binding site [nucleotide binding] 246200011775 domain linker motif; other site 246200011776 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 246200011777 putative dimerization interface [polypeptide binding]; other site 246200011778 putative ligand binding site [chemical binding]; other site 246200011779 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 246200011780 Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs; Region: PBP1_LuxPQ_Quorum_Sensing; cd06303 246200011781 ligand binding site [chemical binding]; other site 246200011782 subunit interaction site [polypeptide binding]; other site 246200011783 calcium binding site [ion binding]; other site 246200011784 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 246200011785 TM-ABC transporter signature motif; other site 246200011786 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200011787 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200011788 Walker A/P-loop; other site 246200011789 ATP binding site [chemical binding]; other site 246200011790 Q-loop/lid; other site 246200011791 ABC transporter signature motif; other site 246200011792 Walker B; other site 246200011793 D-loop; other site 246200011794 H-loop/switch region; other site 246200011795 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 246200011796 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_6; cd06315 246200011797 putative ligand binding site [chemical binding]; other site 246200011798 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 246200011799 TM-ABC transporter signature motif; other site 246200011800 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 246200011801 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses...; Region: ABC_Carb_Monos_I; cd03216 246200011802 Walker A/P-loop; other site 246200011803 ATP binding site [chemical binding]; other site 246200011804 Q-loop/lid; other site 246200011805 ABC transporter signature motif; other site 246200011806 Walker B; other site 246200011807 D-loop; other site 246200011808 H-loop/switch region; other site 246200011809 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses; Region: ABC_Carb_Monos_II; cd03215 246200011810 Transcriptional regulators [Transcription]; Region: PurR; COG1609 246200011811 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 246200011812 DNA binding site [nucleotide binding] 246200011813 domain linker motif; other site 246200011814 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 246200011815 putative dimerization interface [polypeptide binding]; other site 246200011816 putative ligand binding site [chemical binding]; other site 246200011817 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 246200011818 dimer interface [polypeptide binding]; other site 246200011819 NADP binding site [chemical binding]; other site 246200011820 catalytic residues [active] 246200011821 Transcriptional regulators [Transcription]; Region: GntR; COG1802 246200011822 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200011823 DNA-binding site [nucleotide binding]; DNA binding site 246200011824 FCD domain; Region: FCD; cl11656 246200011825 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200011826 DctM-like transporters; Region: DctM; pfam06808 246200011827 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200011828 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200011829 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200011830 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 246200011831 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 246200011832 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 246200011833 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 246200011834 inhibitor site; inhibition site 246200011835 active site 246200011836 dimer interface [polypeptide binding]; other site 246200011837 catalytic residue [active] 246200011838 Transcriptional regulator [Transcription]; Region: IclR; COG1414 246200011839 Helix-turn-helix domains; Region: HTH; cl00088 246200011840 Bacterial transcriptional regulator; Region: IclR; pfam01614 246200011841 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 246200011842 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 246200011843 Cu(I) binding site [ion binding]; other site 246200011844 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 246200011845 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 246200011846 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 246200011847 substrate binding site [chemical binding]; other site 246200011848 catalytic Zn binding site [ion binding]; other site 246200011849 NAD binding site [chemical binding]; other site 246200011850 structural Zn binding site [ion binding]; other site 246200011851 dimer interface [polypeptide binding]; other site 246200011852 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 246200011853 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 246200011854 non-specific DNA binding site [nucleotide binding]; other site 246200011855 salt bridge; other site 246200011856 sequence-specific DNA binding site [nucleotide binding]; other site 246200011857 Cupin domain; Region: Cupin_2; cl09118 246200011858 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 246200011859 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 246200011860 inhibitor-cofactor binding pocket; inhibition site 246200011861 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200011862 catalytic residue [active] 246200011863 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200011864 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 246200011865 tetramerization interface [polypeptide binding]; other site 246200011866 NAD(P) binding site [chemical binding]; other site 246200011867 catalytic residues [active] 246200011868 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 246200011869 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 246200011870 putative substrate binding site [chemical binding]; other site 246200011871 putative ATP binding site [chemical binding]; other site 246200011872 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200011873 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 246200011874 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200011875 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200011876 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200011877 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200011878 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200011879 Helix-turn-helix domains; Region: HTH; cl00088 246200011880 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 246200011881 dimerization interface [polypeptide binding]; other site 246200011882 malonyl-CoA synthase; Validated; Region: PRK07514 246200011883 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200011884 choline dehydrogenase; Validated; Region: PRK02106 246200011885 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 246200011886 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200011887 Helix-turn-helix domains; Region: HTH; cl00088 246200011888 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 246200011889 dimerization interface [polypeptide binding]; other site 246200011890 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 246200011891 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 246200011892 substrate binding site [chemical binding]; other site 246200011893 oxyanion hole (OAH) forming residues; other site 246200011894 trimer interface [polypeptide binding]; other site 246200011895 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 246200011896 conserved cys residue [active] 246200011897 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 246200011898 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200011899 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200011900 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200011901 active site 246200011902 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200011903 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 246200011904 conserved cys residue [active] 246200011905 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200011906 HTH DNA binding domain; Region: HTH_13; pfam11972 246200011907 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 246200011908 homodimer interface [polypeptide binding]; other site 246200011909 substrate-cofactor binding pocket; other site 246200011910 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200011911 Aminotransferase class IV; Region: Aminotran_4; pfam01063 246200011912 catalytic residue [active] 246200011913 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 246200011914 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 246200011915 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 246200011916 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 246200011917 S-adenosylmethionine binding site [chemical binding]; other site 246200011918 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200011919 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200011920 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 246200011921 Walker A/P-loop; other site 246200011922 ATP binding site [chemical binding]; other site 246200011923 Q-loop/lid; other site 246200011924 ABC transporter signature motif; other site 246200011925 Walker B; other site 246200011926 D-loop; other site 246200011927 H-loop/switch region; other site 246200011928 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200011929 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 246200011930 Walker A/P-loop; other site 246200011931 ATP binding site [chemical binding]; other site 246200011932 Q-loop/lid; other site 246200011933 ABC transporter signature motif; other site 246200011934 Walker B; other site 246200011935 D-loop; other site 246200011936 H-loop/switch region; other site 246200011937 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 246200011938 TM-ABC transporter signature motif; other site 246200011939 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 246200011940 TM-ABC transporter signature motif; other site 246200011941 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_3; cd06336 246200011942 putative ligand binding site [chemical binding]; other site 246200011943 Transcriptional regulators [Transcription]; Region: GntR; COG1802 246200011944 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200011945 DNA-binding site [nucleotide binding]; DNA binding site 246200011946 FCD domain; Region: FCD; cl11656 246200011947 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 246200011948 Phage integrase family; Region: Phage_integrase; pfam00589 246200011949 DNA binding site [nucleotide binding] 246200011950 Int/Topo IB signature motif; other site 246200011951 active site 246200011952 plasmid partitioning protein RepB; Provisional; Region: PRK13866 246200011953 ParB-like nuclease domain; Region: ParBc; cl02129 246200011954 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 246200011955 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 246200011956 P-loop; other site 246200011957 Magnesium ion binding site [ion binding]; other site 246200011958 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 246200011959 Magnesium ion binding site [ion binding]; other site 246200011960 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 246200011961 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 246200011962 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 246200011963 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 246200011964 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 246200011965 RNA binding site [nucleotide binding]; other site 246200011966 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 246200011967 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 246200011968 PYR/PP interface [polypeptide binding]; other site 246200011969 dimer interface [polypeptide binding]; other site 246200011970 TPP binding site [chemical binding]; other site 246200011971 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 246200011972 Thiamine pyrophosphate (TPP) family, Xsc-like subfamily, TPP-binding module; composed of proteins similar to Alcaligenes defragrans sulfoacetaldehyde acetyltransferase (Xsc). Xsc plays a key role in the degradation of taurine, catalyzing the...; Region: TPP_Xsc_like; cd02013 246200011973 TPP-binding site; other site 246200011974 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200011975 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200011976 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200011977 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200011978 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200011979 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200011980 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200011981 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200011982 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200011983 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 246200011984 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 246200011985 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200011986 catalytic residue [active] 246200011987 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 246200011988 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200011989 Helix-turn-helix domains; Region: HTH; cl00088 246200011990 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 246200011991 dimerization interface [polypeptide binding]; other site 246200011992 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 246200011993 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 246200011994 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 246200011995 active site 246200011996 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200011997 Helix-turn-helix domains; Region: HTH; cl00088 246200011998 methionine gamma-lyase; Provisional; Region: PRK07503 246200011999 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 246200012000 homodimer interface [polypeptide binding]; other site 246200012001 substrate-cofactor binding pocket; other site 246200012002 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012003 catalytic residue [active] 246200012004 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 246200012005 TPP-binding site [chemical binding]; other site 246200012006 transketolase; Reviewed; Region: PRK05899 246200012007 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 246200012008 PYR/PP interface [polypeptide binding]; other site 246200012009 dimer interface [polypeptide binding]; other site 246200012010 TPP binding site [chemical binding]; other site 246200012011 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 246200012012 putative substrate binding pocket [chemical binding]; other site 246200012013 trimer interface [polypeptide binding]; other site 246200012014 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 246200012015 active site 246200012016 metal binding site [ion binding]; metal-binding site 246200012017 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200012018 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 246200012019 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; cl12011 246200012020 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 246200012021 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 246200012022 ligand binding site [chemical binding]; other site 246200012023 flexible hinge region; other site 246200012024 Helix-turn-helix domains; Region: HTH; cl00088 246200012025 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 246200012026 Nitronate monooxygenase; Region: NMO; pfam03060 246200012027 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 246200012028 FMN binding site [chemical binding]; other site 246200012029 substrate binding site [chemical binding]; other site 246200012030 putative catalytic residue [active] 246200012031 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200012032 Helix-turn-helix domains; Region: HTH; cl00088 246200012033 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 246200012034 dimerization interface [polypeptide binding]; other site 246200012035 RTX toxin acyltransferase family; Region: HlyC; cl01131 246200012036 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 246200012037 active site 246200012038 dimer interfaces [polypeptide binding]; other site 246200012039 catalytic residues [active] 246200012040 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 246200012041 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 246200012042 active site 246200012043 intersubunit interface [polypeptide binding]; other site 246200012044 catalytic residue [active] 246200012045 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 246200012046 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 246200012047 substrate binding site [chemical binding]; other site 246200012048 ATP binding site [chemical binding]; other site 246200012049 Dehydratase family; Region: ILVD_EDD; cl00340 246200012050 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200012051 DctM-like transporters; Region: DctM; pfam06808 246200012052 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200012053 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200012054 Transcriptional regulators [Transcription]; Region: PurR; COG1609 246200012055 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 246200012056 DNA binding site [nucleotide binding] 246200012057 domain linker motif; other site 246200012058 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 246200012059 putative dimerization interface [polypeptide binding]; other site 246200012060 putative ligand binding site [chemical binding]; other site 246200012061 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 246200012062 Helix-turn-helix domains; Region: HTH; cl00088 246200012063 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 246200012064 substrate binding pocket [chemical binding]; other site 246200012065 dimerization interface [polypeptide binding]; other site 246200012066 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 246200012067 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 246200012068 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 246200012069 active site 1 [active] 246200012070 dimer interface [polypeptide binding]; other site 246200012071 hexamer interface [polypeptide binding]; other site 246200012072 active site 2 [active] 246200012073 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 246200012074 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200012075 Helix-turn-helix domains; Region: HTH; cl00088 246200012076 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 246200012077 dimerization interface [polypeptide binding]; other site 246200012078 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 246200012079 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 246200012080 active site 246200012081 catalytic tetrad [active] 246200012082 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 246200012083 putative arabinose transporter; Provisional; Region: PRK03545 246200012084 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 246200012085 Helix-turn-helix domains; Region: HTH; cl00088 246200012086 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200012087 EamA-like transporter family; Region: EamA; cl01037 246200012088 hypothetical protein; Provisional; Region: PRK07481 246200012089 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 246200012090 inhibitor-cofactor binding pocket; inhibition site 246200012091 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012092 catalytic residue [active] 246200012093 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 246200012094 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200012095 NAD(P) binding site [chemical binding]; other site 246200012096 catalytic residues [active] 246200012097 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 246200012098 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 246200012099 inhibitor-cofactor binding pocket; inhibition site 246200012100 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012101 catalytic residue [active] 246200012102 Phosphotransferase enzyme family; Region: APH; pfam01636 246200012103 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 246200012104 active site 246200012105 ATP binding site [chemical binding]; other site 246200012106 substrate binding site [chemical binding]; other site 246200012107 Uncharacterised protein family (UPF0261); Region: UPF0261; cl02262 246200012108 osmolarity response regulator; Provisional; Region: ompR; PRK09468 246200012109 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 246200012110 active site 246200012111 phosphorylation site [posttranslational modification] 246200012112 intermolecular recognition site; other site 246200012113 dimerization interface [polypeptide binding]; other site 246200012114 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 246200012115 DNA binding site [nucleotide binding] 246200012116 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 246200012117 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 246200012118 dimer interface [polypeptide binding]; other site 246200012119 phosphorylation site [posttranslational modification] 246200012120 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 246200012121 ATP binding site [chemical binding]; other site 246200012122 Mg2+ binding site [ion binding]; other site 246200012123 G-X-G motif; other site 246200012124 Cytochrome c; Region: Cytochrom_C; cl11414 246200012125 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 246200012126 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 246200012127 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 246200012128 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 246200012129 Cytochrome c; Region: Cytochrom_C; cl11414 246200012130 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 246200012131 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 246200012132 catalytic residues [active] 246200012133 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 246200012134 Uncharacterized conserved protein [Function unknown]; Region: COG3391 246200012135 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 246200012136 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 246200012137 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 246200012138 Amino acid permease; Region: AA_permease; cl00524 246200012139 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 246200012140 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 246200012141 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 246200012142 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 246200012143 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 246200012144 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 246200012145 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 246200012146 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200012147 DctM-like transporters; Region: DctM; pfam06808 246200012148 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 246200012149 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200012150 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200012151 DNA-binding site [nucleotide binding]; DNA binding site 246200012152 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 246200012153 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 246200012154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012155 homodimer interface [polypeptide binding]; other site 246200012156 catalytic residue [active] 246200012157 Epoxide hydrolase N terminus; Region: EHN; pfam06441 246200012158 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 246200012159 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200012160 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 246200012161 NAD(P) binding site [chemical binding]; other site 246200012162 catalytic residues [active] 246200012163 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 246200012164 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 246200012165 active site pocket [active] 246200012166 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200012167 DNA-binding site [nucleotide binding]; DNA binding site 246200012168 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 246200012169 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 246200012170 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012171 homodimer interface [polypeptide binding]; other site 246200012172 catalytic residue [active] 246200012173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200012174 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200012175 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 246200012176 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 246200012177 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 246200012178 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 246200012179 Walker A/P-loop; other site 246200012180 ATP binding site [chemical binding]; other site 246200012181 Q-loop/lid; other site 246200012182 ABC transporter signature motif; other site 246200012183 Walker B; other site 246200012184 D-loop; other site 246200012185 H-loop/switch region; other site 246200012186 TOBE domain; Region: TOBE_2; cl01440 246200012187 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 246200012188 dimer interface [polypeptide binding]; other site 246200012189 conserved gate region; other site 246200012190 putative PBP binding loops; other site 246200012191 ABC-ATPase subunit interface; other site 246200012192 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 246200012193 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 246200012194 dimer interface [polypeptide binding]; other site 246200012195 conserved gate region; other site 246200012196 putative PBP binding loops; other site 246200012197 ABC-ATPase subunit interface; other site 246200012198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200012199 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200012200 choline dehydrogenase; Validated; Region: PRK02106 246200012201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200012202 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 246200012203 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 246200012204 Helix-turn-helix domains; Region: HTH; cl00088 246200012205 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 246200012206 dimerization interface [polypeptide binding]; other site 246200012207 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 246200012208 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200012209 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 246200012210 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 246200012211 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 246200012212 DNA binding residues [nucleotide binding] 246200012213 dimer interface [polypeptide binding]; other site 246200012214 putative metal binding site [ion binding]; other site 246200012215 Sulfatase; Region: Sulfatase; cl10460 246200012216 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 246200012217 ligand binding site [chemical binding]; other site 246200012218 flexible hinge region; other site 246200012219 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 246200012220 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; cl15358 246200012221 Killing trait; Region: RebB; pfam11747 246200012222 Killing trait; Region: RebB; pfam11747 246200012223 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 246200012224 homotrimer interaction site [polypeptide binding]; other site 246200012225 putative active site [active] 246200012226 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 246200012227 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 246200012228 Cupin domain; Region: Cupin_2; cl09118 246200012229 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200012230 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200012231 active site 246200012232 enoyl-CoA hydratase; Provisional; Region: PRK08258 246200012233 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 246200012234 substrate binding site [chemical binding]; other site 246200012235 oxyanion hole (OAH) forming residues; other site 246200012236 trimer interface [polypeptide binding]; other site 246200012237 Transcriptional regulators [Transcription]; Region: MarR; COG1846 246200012238 Helix-turn-helix domains; Region: HTH; cl00088 246200012239 classical (c) SDRs; Region: SDR_c; cd05233 246200012240 NAD(P) binding site [chemical binding]; other site 246200012241 active site 246200012242 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 246200012243 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200012244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200012245 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 246200012246 active site 246200012247 FMN binding site [chemical binding]; other site 246200012248 substrate binding site [chemical binding]; other site 246200012249 homotetramer interface [polypeptide binding]; other site 246200012250 catalytic residue [active] 246200012251 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 246200012252 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 246200012253 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 246200012254 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 246200012255 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; cl08390 246200012256 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 246200012257 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 246200012258 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 246200012259 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; cl03161 246200012260 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 246200012261 Ubiquitin-like proteins; Region: UBQ; cl00155 246200012262 charged pocket; other site 246200012263 hydrophobic patch; other site 246200012264 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200012265 Transcriptional regulators [Transcription]; Region: GntR; COG1802 246200012266 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200012267 DNA-binding site [nucleotide binding]; DNA binding site 246200012268 FCD domain; Region: FCD; cl11656 246200012269 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 246200012270 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 246200012271 PYR/PP interface [polypeptide binding]; other site 246200012272 dimer interface [polypeptide binding]; other site 246200012273 TPP binding site [chemical binding]; other site 246200012274 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 246200012275 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 246200012276 TPP-binding site [chemical binding]; other site 246200012277 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 246200012278 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 246200012279 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 246200012280 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 246200012281 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 246200012282 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200012283 Helix-turn-helix domains; Region: HTH; cl00088 246200012284 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 246200012285 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 246200012286 substrate binding site [chemical binding]; other site 246200012287 oxyanion hole (OAH) forming residues; other site 246200012288 trimer interface [polypeptide binding]; other site 246200012289 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; cl12011 246200012290 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200012291 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200012292 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 246200012293 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 246200012294 dimer interface [polypeptide binding]; other site 246200012295 active site 246200012296 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 246200012297 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 246200012298 SurA N-terminal domain; Region: SurA_N; pfam09312 246200012299 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200012300 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 246200012301 dimerization interface [polypeptide binding]; other site 246200012302 putative DNA binding site [nucleotide binding]; other site 246200012303 putative Zn2+ binding site [ion binding]; other site 246200012304 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 246200012305 galactonate dehydratase; Provisional; Region: PRK14017 246200012306 active site pocket [active] 246200012307 hypothetical protein; Provisional; Region: PRK08262 246200012308 M20 Peptidase, carboxypeptidase yscS; Region: M20_yscS; cd05674 246200012309 metal binding site [ion binding]; metal-binding site 246200012310 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 246200012311 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 246200012312 NAD binding site [chemical binding]; other site 246200012313 catalytic Zn binding site [ion binding]; other site 246200012314 substrate binding site [chemical binding]; other site 246200012315 structural Zn binding site [ion binding]; other site 246200012316 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 246200012317 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200012318 putative substrate translocation pore; other site 246200012319 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 246200012320 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 246200012321 tetramer interface [polypeptide binding]; other site 246200012322 active site 246200012323 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 246200012324 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200012325 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 246200012326 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 246200012327 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 246200012328 tetramer interface [polypeptide binding]; other site 246200012329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012330 catalytic residue [active] 246200012331 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200012332 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 246200012333 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 246200012334 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 246200012335 motif II; other site 246200012336 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 246200012337 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 246200012338 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 246200012339 NAD binding site [chemical binding]; other site 246200012340 homotetramer interface [polypeptide binding]; other site 246200012341 homodimer interface [polypeptide binding]; other site 246200012342 substrate binding site [chemical binding]; other site 246200012343 active site 246200012344 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 246200012345 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 246200012346 dimer interface [polypeptide binding]; other site 246200012347 active site 246200012348 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 246200012349 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 246200012350 active site 1 [active] 246200012351 dimer interface [polypeptide binding]; other site 246200012352 active site 2 [active] 246200012353 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 246200012354 metal binding site 2 [ion binding]; metal-binding site 246200012355 putative DNA binding helix; other site 246200012356 metal binding site 1 [ion binding]; metal-binding site 246200012357 dimer interface [polypeptide binding]; other site 246200012358 structural Zn2+ binding site [ion binding]; other site 246200012359 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200012360 Helix-turn-helix domains; Region: HTH; cl00088 246200012361 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 246200012362 dimerization interface [polypeptide binding]; other site