-- dump date 20140620_041821 -- 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 246200000003 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 246200000004 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 246200000005 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 246200000006 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 246200000007 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 246200000008 P-loop; other site 246200000009 Magnesium ion binding site [ion binding]; other site 246200000010 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 246200000011 Magnesium ion binding site [ion binding]; other site 246200000012 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 246200000013 ParB-like nuclease domain; Region: ParBc; pfam02195 246200000014 KorB domain; Region: KorB; pfam08535 246200000015 Protein of unknown function (DUF454); Region: DUF454; pfam04304 246200000016 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 246200000017 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 246200000018 FeS/SAM binding site; other site 246200000019 HemN C-terminal domain; Region: HemN_C; pfam06969 246200000020 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 246200000021 active site 246200000022 dimerization interface [polypeptide binding]; other site 246200000023 ribonuclease PH; Reviewed; Region: rph; PRK00173 246200000024 Ribonuclease PH; Region: RNase_PH_bact; cd11362 246200000025 hexamer interface [polypeptide binding]; other site 246200000026 active site 246200000027 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 246200000028 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 246200000029 GrpE; Region: GrpE; pfam01025 246200000030 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 246200000031 dimer interface [polypeptide binding]; other site 246200000032 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 246200000033 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 246200000034 MutS domain I; Region: MutS_I; pfam01624 246200000035 MutS domain II; Region: MutS_II; pfam05188 246200000036 MutS domain III; Region: MutS_III; pfam05192 246200000037 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 246200000038 Walker A/P-loop; other site 246200000039 ATP binding site [chemical binding]; other site 246200000040 Q-loop/lid; other site 246200000041 ABC transporter signature motif; other site 246200000042 Walker B; other site 246200000043 D-loop; other site 246200000044 H-loop/switch region; other site 246200000045 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 246200000046 Malic enzyme, N-terminal domain; Region: malic; pfam00390 246200000047 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 246200000048 putative NAD(P) binding site [chemical binding]; other site 246200000049 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 246200000050 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 246200000051 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 246200000052 substrate binding site [chemical binding]; other site 246200000053 dimer interface [polypeptide binding]; other site 246200000054 ATP binding site [chemical binding]; other site 246200000055 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 246200000056 SCP-2 sterol transfer family; Region: SCP2; pfam02036 246200000057 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 246200000058 argininosuccinate synthase; Provisional; Region: PRK13820 246200000059 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 246200000060 ANP binding site [chemical binding]; other site 246200000061 Substrate Binding Site II [chemical binding]; other site 246200000062 Substrate Binding Site I [chemical binding]; other site 246200000063 threonine dehydratase; Validated; Region: PRK08639 246200000064 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 246200000065 tetramer interface [polypeptide binding]; other site 246200000066 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200000067 catalytic residue [active] 246200000068 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 246200000069 putative Ile/Val binding site [chemical binding]; other site 246200000070 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 246200000071 Response regulator receiver domain; Region: Response_reg; pfam00072 246200000072 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 246200000073 active site 246200000074 phosphorylation site [posttranslational modification] 246200000075 intermolecular recognition site; other site 246200000076 dimerization interface [polypeptide binding]; other site 246200000077 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 246200000078 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 246200000079 nudix motif; other site 246200000080 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 246200000081 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 246200000082 dimerization interface [polypeptide binding]; other site 246200000083 domain crossover interface; other site 246200000084 redox-dependent activation switch; other site 246200000085 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 246200000086 putative active site [active] 246200000087 putative CoA binding site [chemical binding]; other site 246200000088 nudix motif; other site 246200000089 metal binding site [ion binding]; metal-binding site 246200000090 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 246200000091 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 246200000092 active site 246200000093 NTP binding site [chemical binding]; other site 246200000094 metal binding triad [ion binding]; metal-binding site 246200000095 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 246200000096 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 246200000097 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 246200000098 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200000099 Walker A/P-loop; other site 246200000100 ATP binding site [chemical binding]; other site 246200000101 Q-loop/lid; other site 246200000102 ABC transporter signature motif; other site 246200000103 Walker B; other site 246200000104 D-loop; other site 246200000105 H-loop/switch region; other site 246200000106 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 246200000107 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200000108 Walker A/P-loop; other site 246200000109 ATP binding site [chemical binding]; other site 246200000110 Q-loop/lid; other site 246200000111 ABC transporter signature motif; other site 246200000112 Walker B; other site 246200000113 D-loop; other site 246200000114 H-loop/switch region; other site 246200000115 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 246200000116 TRAM domain; Region: TRAM; cl01282 246200000117 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 246200000118 S-adenosylmethionine binding site [chemical binding]; other site 246200000119 Ion transport protein; Region: Ion_trans; pfam00520 246200000120 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 246200000121 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200000122 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200000123 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 246200000124 dimerization interface [polypeptide binding]; other site 246200000125 substrate binding pocket [chemical binding]; other site 246200000126 Stf0 sulphotransferase; Region: Sulphotransf; cl01835 246200000127 Core-2/I-Branching enzyme; Region: Branch; pfam02485 246200000128 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 246200000129 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 246200000130 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 246200000131 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 246200000132 Ligand binding site; other site 246200000133 oligomer interface; other site 246200000134 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 246200000135 active site 246200000136 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 246200000137 ABC-2 type transporter; Region: ABC2_membrane; cl17235 246200000138 Bacterial SH3 domain; Region: SH3_3; pfam08239 246200000139 Predicted membrane protein [Function unknown]; Region: COG3650 246200000140 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 246200000141 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 246200000142 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 246200000143 nucleotide binding site [chemical binding]; other site 246200000144 NEF interaction site [polypeptide binding]; other site 246200000145 SBD interface [polypeptide binding]; other site 246200000146 chaperone protein DnaJ; Provisional; Region: PRK10767 246200000147 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 246200000148 HSP70 interaction site [polypeptide binding]; other site 246200000149 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 246200000150 substrate binding site [polypeptide binding]; other site 246200000151 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 246200000152 Zn binding sites [ion binding]; other site 246200000153 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 246200000154 dimer interface [polypeptide binding]; other site 246200000155 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 246200000156 dimer interface [polypeptide binding]; other site 246200000157 substrate binding site [chemical binding]; other site 246200000158 ATP binding site [chemical binding]; other site 246200000159 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 246200000160 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 246200000161 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 246200000162 thiS-thiF/thiG interaction site; other site 246200000163 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 246200000164 ThiS interaction site; other site 246200000165 putative active site [active] 246200000166 tetramer interface [polypeptide binding]; other site 246200000167 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 246200000168 active site 246200000169 thiamine phosphate binding site [chemical binding]; other site 246200000170 pyrophosphate binding site [ion binding]; other site 246200000171 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 246200000172 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 246200000173 ATP binding site [chemical binding]; other site 246200000174 substrate interface [chemical binding]; other site 246200000175 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 246200000176 active site residue [active] 246200000177 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; cl17432 246200000178 NMT1/THI5 like; Region: NMT1; pfam09084 246200000179 membrane-bound complex binding site; other site 246200000180 Putative transcription activator [Transcription]; Region: TenA; COG0819 246200000181 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 246200000182 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200000183 Walker A/P-loop; other site 246200000184 ATP binding site [chemical binding]; other site 246200000185 Q-loop/lid; other site 246200000186 ABC transporter signature motif; other site 246200000187 Walker B; other site 246200000188 D-loop; other site 246200000189 H-loop/switch region; other site 246200000190 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 246200000191 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 246200000192 dimer interface [polypeptide binding]; other site 246200000193 conserved gate region; other site 246200000194 putative PBP binding loops; other site 246200000195 ABC-ATPase subunit interface; other site 246200000196 hypothetical protein; Reviewed; Region: PRK00024 246200000197 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 246200000198 MPN+ (JAMM) motif; other site 246200000199 Zinc-binding site [ion binding]; other site 246200000200 PBP superfamily domain; Region: PBP_like_2; cl17296 246200000201 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 246200000202 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 246200000203 ligand binding site [chemical binding]; other site 246200000204 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 246200000205 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 246200000206 SEC-C motif; Region: SEC-C; pfam02810 246200000207 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 246200000208 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 246200000209 heterotetramer interface [polypeptide binding]; other site 246200000210 active site pocket [active] 246200000211 cleavage site 246200000212 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 246200000213 active site 246200000214 8-oxo-dGMP binding site [chemical binding]; other site 246200000215 nudix motif; other site 246200000216 metal binding site [ion binding]; metal-binding site 246200000217 translation initiation factor IF-2; Region: IF-2; TIGR00487 246200000218 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 246200000219 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 246200000220 G1 box; other site 246200000221 putative GEF interaction site [polypeptide binding]; other site 246200000222 GTP/Mg2+ binding site [chemical binding]; other site 246200000223 Switch I region; other site 246200000224 G2 box; other site 246200000225 G3 box; other site 246200000226 Switch II region; other site 246200000227 G4 box; other site 246200000228 G5 box; other site 246200000229 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 246200000230 Translation-initiation factor 2; Region: IF-2; pfam11987 246200000231 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 246200000232 hypothetical protein; Provisional; Region: PRK09190 246200000233 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 246200000234 putative RNA binding cleft [nucleotide binding]; other site 246200000235 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 246200000236 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 246200000237 NusA N-terminal domain; Region: NusA_N; pfam08529 246200000238 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 246200000239 RNA binding site [nucleotide binding]; other site 246200000240 homodimer interface [polypeptide binding]; other site 246200000241 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 246200000242 G-X-X-G motif; other site 246200000243 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 246200000244 G-X-X-G motif; other site 246200000245 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 246200000246 ribosome maturation protein RimP; Reviewed; Region: PRK00092 246200000247 Sm and related proteins; Region: Sm_like; cl00259 246200000248 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 246200000249 putative oligomer interface [polypeptide binding]; other site 246200000250 putative RNA binding site [nucleotide binding]; other site 246200000251 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 246200000252 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 246200000253 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 246200000254 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 246200000255 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 246200000256 S-adenosylmethionine binding site [chemical binding]; other site 246200000257 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 246200000258 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 246200000259 MarR family; Region: MarR_2; pfam12802 246200000260 nitrilase; Region: PLN02798 246200000261 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 246200000262 putative active site [active] 246200000263 catalytic triad [active] 246200000264 dimer interface [polypeptide binding]; other site 246200000265 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 246200000266 GSH binding site [chemical binding]; other site 246200000267 catalytic residues [active] 246200000268 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 246200000269 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 246200000270 active site 246200000271 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 246200000272 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 246200000273 ferrochelatase; Reviewed; Region: hemH; PRK00035 246200000274 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 246200000275 C-terminal domain interface [polypeptide binding]; other site 246200000276 active site 246200000277 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 246200000278 active site 246200000279 N-terminal domain interface [polypeptide binding]; other site 246200000280 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 246200000281 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 246200000282 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 246200000283 active site 246200000284 phosphorylation site [posttranslational modification] 246200000285 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 246200000286 30S subunit binding site; other site 246200000287 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 246200000288 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 246200000289 Walker A/P-loop; other site 246200000290 ATP binding site [chemical binding]; other site 246200000291 Q-loop/lid; other site 246200000292 ABC transporter signature motif; other site 246200000293 Walker B; other site 246200000294 D-loop; other site 246200000295 H-loop/switch region; other site 246200000296 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 246200000297 OstA-like protein; Region: OstA; pfam03968 246200000298 OstA-like protein; Region: OstA; cl00844 246200000299 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 246200000300 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 246200000301 putative active site [active] 246200000302 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 246200000303 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 246200000304 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 246200000305 catalytic site [active] 246200000306 putative active site [active] 246200000307 putative substrate binding site [chemical binding]; other site 246200000308 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 246200000309 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 246200000310 NAD(P) binding site [chemical binding]; other site 246200000311 catalytic residues [active] 246200000312 Imelysin; Region: Peptidase_M75; cl09159 246200000313 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 246200000314 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 246200000315 Imelysin; Region: Peptidase_M75; pfam09375 246200000316 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 246200000317 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 246200000318 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 246200000319 active site residue [active] 246200000320 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 246200000321 putative chaperone; Provisional; Region: PRK11678 246200000322 nucleotide binding site [chemical binding]; other site 246200000323 putative NEF/HSP70 interaction site [polypeptide binding]; other site 246200000324 SBD interface [polypeptide binding]; other site 246200000325 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 246200000326 Isochorismatase family; Region: Isochorismatase; pfam00857 246200000327 catalytic triad [active] 246200000328 metal binding site [ion binding]; metal-binding site 246200000329 conserved cis-peptide bond; other site 246200000330 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 246200000331 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 246200000332 putative active site [active] 246200000333 heme pocket [chemical binding]; other site 246200000334 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 246200000335 dimer interface [polypeptide binding]; other site 246200000336 phosphorylation site [posttranslational modification] 246200000337 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 246200000338 ATP binding site [chemical binding]; other site 246200000339 Mg2+ binding site [ion binding]; other site 246200000340 G-X-G motif; other site 246200000341 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 246200000342 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 246200000343 active site 246200000344 phosphorylation site [posttranslational modification] 246200000345 intermolecular recognition site; other site 246200000346 dimerization interface [polypeptide binding]; other site 246200000347 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 246200000348 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 246200000349 active site 246200000350 EamA-like transporter family; Region: EamA; pfam00892 246200000351 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200000352 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200000353 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 246200000354 NAD(P) binding site [chemical binding]; other site 246200000355 catalytic residues [active] 246200000356 catalytic residues [active] 246200000357 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 246200000358 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200000359 Walker A/P-loop; other site 246200000360 ATP binding site [chemical binding]; other site 246200000361 Q-loop/lid; other site 246200000362 ABC transporter signature motif; other site 246200000363 Walker B; other site 246200000364 D-loop; other site 246200000365 H-loop/switch region; other site 246200000366 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200000367 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200000368 Walker A/P-loop; other site 246200000369 ATP binding site [chemical binding]; other site 246200000370 Q-loop/lid; other site 246200000371 ABC transporter signature motif; other site 246200000372 Walker B; other site 246200000373 D-loop; other site 246200000374 H-loop/switch region; other site 246200000375 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 246200000376 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 246200000377 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 246200000378 dimer interface [polypeptide binding]; other site 246200000379 conserved gate region; other site 246200000380 putative PBP binding loops; other site 246200000381 ABC-ATPase subunit interface; other site 246200000382 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200000383 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 246200000384 dimer interface [polypeptide binding]; other site 246200000385 conserved gate region; other site 246200000386 putative PBP binding loops; other site 246200000387 ABC-ATPase subunit interface; other site 246200000388 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200000389 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 246200000390 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 246200000391 active site 246200000392 oligomerization interface [polypeptide binding]; other site 246200000393 metal binding site [ion binding]; metal-binding site 246200000394 pantoate--beta-alanine ligase; Region: panC; TIGR00018 246200000395 Pantoate-beta-alanine ligase; Region: PanC; cd00560 246200000396 active site 246200000397 ATP-binding site [chemical binding]; other site 246200000398 pantoate-binding site; other site 246200000399 HXXH motif; other site 246200000400 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 246200000401 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 246200000402 N- and C-terminal domain interface [polypeptide binding]; other site 246200000403 active site 246200000404 MgATP binding site [chemical binding]; other site 246200000405 catalytic site [active] 246200000406 metal binding site [ion binding]; metal-binding site 246200000407 glycerol binding site [chemical binding]; other site 246200000408 homotetramer interface [polypeptide binding]; other site 246200000409 homodimer interface [polypeptide binding]; other site 246200000410 FBP binding site [chemical binding]; other site 246200000411 protein IIAGlc interface [polypeptide binding]; other site 246200000412 hypothetical protein; Provisional; Region: PRK07538 246200000413 hypothetical protein; Provisional; Region: PRK07236 246200000414 hypothetical protein; Validated; Region: PRK02101 246200000415 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 246200000416 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 246200000417 ATP binding site [chemical binding]; other site 246200000418 putative Mg++ binding site [ion binding]; other site 246200000419 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 246200000420 nucleotide binding region [chemical binding]; other site 246200000421 ATP-binding site [chemical binding]; other site 246200000422 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 246200000423 HRDC domain; Region: HRDC; pfam00570 246200000424 Integrase core domain; Region: rve_3; pfam13683 246200000425 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 246200000426 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 246200000427 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 246200000428 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 246200000429 Walker A/P-loop; other site 246200000430 ATP binding site [chemical binding]; other site 246200000431 Q-loop/lid; other site 246200000432 ABC transporter signature motif; other site 246200000433 Walker B; other site 246200000434 D-loop; other site 246200000435 H-loop/switch region; other site 246200000436 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 246200000437 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200000438 Walker A/P-loop; other site 246200000439 ATP binding site [chemical binding]; other site 246200000440 Q-loop/lid; other site 246200000441 ABC transporter signature motif; other site 246200000442 Walker B; other site 246200000443 D-loop; other site 246200000444 H-loop/switch region; other site 246200000445 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 246200000446 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 246200000447 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 246200000448 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 246200000449 HlyD family secretion protein; Region: HlyD_3; pfam13437 246200000450 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 246200000451 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 246200000452 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 246200000453 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 246200000454 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 246200000455 NAD binding site [chemical binding]; other site 246200000456 homotetramer interface [polypeptide binding]; other site 246200000457 homodimer interface [polypeptide binding]; other site 246200000458 substrate binding site [chemical binding]; other site 246200000459 active site 246200000460 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 246200000461 (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 246200000462 dimer interaction site [polypeptide binding]; other site 246200000463 substrate-binding tunnel; other site 246200000464 active site 246200000465 catalytic site [active] 246200000466 substrate binding site [chemical binding]; other site 246200000467 phosphate acetyltransferase; Provisional; Region: PRK11890 246200000468 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 246200000469 propionate/acetate kinase; Provisional; Region: PRK12379 246200000470 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200000471 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 246200000472 dimerization interface [polypeptide binding]; other site 246200000473 putative DNA binding site [nucleotide binding]; other site 246200000474 putative Zn2+ binding site [ion binding]; other site 246200000475 AsnC family; Region: AsnC_trans_reg; pfam01037 246200000476 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 246200000477 YGGT family; Region: YGGT; pfam02325 246200000478 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 246200000479 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 246200000480 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 246200000481 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 246200000482 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 246200000483 hypothetical protein; Provisional; Region: PRK09256 246200000484 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 246200000485 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 246200000486 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 246200000487 putative NAD(P) binding site [chemical binding]; other site 246200000488 active site 246200000489 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 246200000490 putative active site pocket [active] 246200000491 cleavage site 246200000492 Cytochrome c; Region: Cytochrom_C; cl11414 246200000493 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 246200000494 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 246200000495 active site 246200000496 metal binding site [ion binding]; metal-binding site 246200000497 nudix motif; other site 246200000498 PAS fold; Region: PAS_7; pfam12860 246200000499 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 246200000500 dimer interface [polypeptide binding]; other site 246200000501 phosphorylation site [posttranslational modification] 246200000502 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 246200000503 ATP binding site [chemical binding]; other site 246200000504 Mg2+ binding site [ion binding]; other site 246200000505 G-X-G motif; other site 246200000506 Response regulator receiver domain; Region: Response_reg; pfam00072 246200000507 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 246200000508 active site 246200000509 phosphorylation site [posttranslational modification] 246200000510 intermolecular recognition site; other site 246200000511 dimerization interface [polypeptide binding]; other site 246200000512 Response regulator receiver domain; Region: Response_reg; pfam00072 246200000513 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 246200000514 active site 246200000515 phosphorylation site [posttranslational modification] 246200000516 intermolecular recognition site; other site 246200000517 dimerization interface [polypeptide binding]; other site 246200000518 PAN/APPLE-like domain; present in N-terminal (N) domains of plasminogen/ hepatocyte growth factor proteins, plasma prekallikrein/coagulation factor XI and microneme antigen proteins, plant receptor-like protein kinases, and various nematode and leech...; Region: PAN_APPLE; cl00112 246200000519 putative binding site; other site 246200000520 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 246200000521 MG2 domain; Region: A2M_N; pfam01835 246200000522 Alpha-2-macroglobulin family; Region: A2M; pfam00207 246200000523 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 246200000524 surface patch; other site 246200000525 thioester region; other site 246200000526 specificity defining residues; other site 246200000527 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 246200000528 Membrane carboxypeptidase/penicillin-binding protein PbpC [Cell envelope biogenesis, outer membrane]; Region: PbpC; COG4953 246200000529 Transglycosylase; Region: Transgly; pfam00912 246200000530 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 246200000531 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 246200000532 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 246200000533 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 246200000534 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 246200000535 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 246200000536 Protein of unknown function DUF58; Region: DUF58; pfam01882 246200000537 MoxR-like ATPases [General function prediction only]; Region: COG0714 246200000538 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 246200000539 Walker A motif; other site 246200000540 ATP binding site [chemical binding]; other site 246200000541 Walker B motif; other site 246200000542 arginine finger; other site 246200000543 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 246200000544 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 246200000545 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 246200000546 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 246200000547 non-specific DNA binding site [nucleotide binding]; other site 246200000548 salt bridge; other site 246200000549 sequence-specific DNA binding site [nucleotide binding]; other site 246200000550 Cupin domain; Region: Cupin_2; pfam07883 246200000551 beta-ketothiolase; Provisional; Region: PRK09051 246200000552 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 246200000553 dimer interface [polypeptide binding]; other site 246200000554 active site 246200000555 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 246200000556 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 246200000557 ABC1 family; Region: ABC1; cl17513 246200000558 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 246200000559 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 246200000560 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 246200000561 S-adenosylmethionine binding site [chemical binding]; other site 246200000562 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 246200000563 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 246200000564 DNA binding site [nucleotide binding] 246200000565 catalytic residue [active] 246200000566 H2TH interface [polypeptide binding]; other site 246200000567 putative catalytic residues [active] 246200000568 turnover-facilitating residue; other site 246200000569 intercalation triad [nucleotide binding]; other site 246200000570 8OG recognition residue [nucleotide binding]; other site 246200000571 putative reading head residues; other site 246200000572 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 246200000573 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 246200000574 enoyl-CoA hydratase; Provisional; Region: PRK05862 246200000575 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 246200000576 substrate binding site [chemical binding]; other site 246200000577 oxyanion hole (OAH) forming residues; other site 246200000578 trimer interface [polypeptide binding]; other site 246200000579 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 246200000580 DnaA N-terminal domain; Region: DnaA_N; pfam11638 246200000581 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 246200000582 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 246200000583 Walker A motif; other site 246200000584 ATP binding site [chemical binding]; other site 246200000585 Walker B motif; other site 246200000586 arginine finger; other site 246200000587 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 246200000588 DnaA box-binding interface [nucleotide binding]; other site 246200000589 DNA polymerase III subunit beta; Validated; Region: PRK05643 246200000590 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 246200000591 putative DNA binding surface [nucleotide binding]; other site 246200000592 dimer interface [polypeptide binding]; other site 246200000593 beta-clamp/clamp loader binding surface; other site 246200000594 beta-clamp/translesion DNA polymerase binding surface; other site 246200000595 recombination protein F; Reviewed; Region: recF; PRK00064 246200000596 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200000597 Walker A/P-loop; other site 246200000598 ATP binding site [chemical binding]; other site 246200000599 Q-loop/lid; other site 246200000600 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200000601 ABC transporter signature motif; other site 246200000602 Walker B; other site 246200000603 D-loop; other site 246200000604 H-loop/switch region; other site 246200000605 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 246200000606 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200000607 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200000608 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 246200000609 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 246200000610 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 246200000611 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 246200000612 Mg2+ binding site [ion binding]; other site 246200000613 G-X-G motif; other site 246200000614 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 246200000615 anchoring element; other site 246200000616 dimer interface [polypeptide binding]; other site 246200000617 ATP binding site [chemical binding]; other site 246200000618 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 246200000619 active site 246200000620 putative metal-binding site [ion binding]; other site 246200000621 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 246200000622 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 246200000623 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 246200000624 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 246200000625 Walker A motif; other site 246200000626 ATP binding site [chemical binding]; other site 246200000627 Walker B motif; other site 246200000628 arginine finger; other site 246200000629 TROVE domain; Region: TROVE; pfam05731 246200000630 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 246200000631 metal ion-dependent adhesion site (MIDAS); other site 246200000632 Uncharacterized protein family UPF0027; Region: UPF0027; cl17455 246200000633 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200000634 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 246200000635 active site 246200000636 phosphorylation site [posttranslational modification] 246200000637 intermolecular recognition site; other site 246200000638 dimerization interface [polypeptide binding]; other site 246200000639 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 246200000640 DNA binding residues [nucleotide binding] 246200000641 dimerization interface [polypeptide binding]; other site 246200000642 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 246200000643 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 246200000644 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 246200000645 putative active site [active] 246200000646 heme pocket [chemical binding]; other site 246200000647 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 246200000648 dimer interface [polypeptide binding]; other site 246200000649 phosphorylation site [posttranslational modification] 246200000650 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 246200000651 ATP binding site [chemical binding]; other site 246200000652 Mg2+ binding site [ion binding]; other site 246200000653 G-X-G motif; other site 246200000654 Response regulator receiver domain; Region: Response_reg; pfam00072 246200000655 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 246200000656 active site 246200000657 phosphorylation site [posttranslational modification] 246200000658 intermolecular recognition site; other site 246200000659 dimerization interface [polypeptide binding]; other site 246200000660 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 246200000661 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 246200000662 putative active site [active] 246200000663 putative FMN binding site [chemical binding]; other site 246200000664 putative substrate binding site [chemical binding]; other site 246200000665 putative catalytic residue [active] 246200000666 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 246200000667 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 246200000668 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 246200000669 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 246200000670 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 246200000671 putative active site [active] 246200000672 putative FMN binding site [chemical binding]; other site 246200000673 putative substrate binding site [chemical binding]; other site 246200000674 putative catalytic residue [active] 246200000675 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 246200000676 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 246200000677 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200000678 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200000679 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 246200000680 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 246200000681 N-acetyl-D-glucosamine binding site [chemical binding]; other site 246200000682 flagellar biosynthesis protein FlhA; Region: FlhA; TIGR01398 246200000683 FHIPEP family; Region: FHIPEP; pfam00771 246200000684 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 246200000685 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 246200000686 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 246200000687 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 246200000688 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 246200000689 SAF-like; Region: SAF_2; pfam13144 246200000690 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 246200000691 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 246200000692 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 246200000693 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 246200000694 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12690 246200000695 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 246200000696 Bacterial export proteins, family 3; Region: Bac_export_3; pfam01313 246200000697 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 246200000698 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12632 246200000699 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 246200000700 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 246200000701 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12627 246200000702 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 246200000703 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 246200000704 Walker A motif; other site 246200000705 ATP binding site [chemical binding]; other site 246200000706 Walker B motif; other site 246200000707 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 246200000708 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 246200000709 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 246200000710 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 246200000711 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 246200000712 active site 246200000713 phosphorylation site [posttranslational modification] 246200000714 intermolecular recognition site; other site 246200000715 dimerization interface [polypeptide binding]; other site 246200000716 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 246200000717 DNA binding site [nucleotide binding] 246200000718 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 246200000719 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 246200000720 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 246200000721 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 246200000722 dimer interface [polypeptide binding]; other site 246200000723 phosphorylation site [posttranslational modification] 246200000724 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 246200000725 ATP binding site [chemical binding]; other site 246200000726 Mg2+ binding site [ion binding]; other site 246200000727 G-X-G motif; other site 246200000728 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 246200000729 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 246200000730 choline dehydrogenase; Validated; Region: PRK02106 246200000731 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 246200000732 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 246200000733 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 246200000734 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 246200000735 ligand binding site [chemical binding]; other site 246200000736 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 246200000737 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 246200000738 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 246200000739 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 246200000740 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 246200000741 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 246200000742 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 246200000743 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 246200000744 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 246200000745 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 246200000746 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 246200000747 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 246200000748 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 246200000749 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 246200000750 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 246200000751 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 246200000752 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 246200000753 Uncharacterized conserved protein [Function unknown]; Region: COG3334 246200000754 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 246200000755 flagellar motor protein MotA; Validated; Region: PRK09110 246200000756 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 246200000757 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200000758 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200000759 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 246200000760 dimerization interface [polypeptide binding]; other site 246200000761 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200000762 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200000763 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200000764 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 246200000765 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200000766 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 246200000767 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 246200000768 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 246200000769 tartrate dehydrogenase; Region: TTC; TIGR02089 246200000770 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 246200000771 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200000772 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200000773 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 246200000774 dimerization interface [polypeptide binding]; other site 246200000775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200000776 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 246200000777 NAD(P) binding site [chemical binding]; other site 246200000778 active site 246200000779 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 246200000780 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 246200000781 substrate binding site [chemical binding]; other site 246200000782 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 246200000783 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 246200000784 substrate binding site [chemical binding]; other site 246200000785 ligand binding site [chemical binding]; other site 246200000786 Mechanosensitive ion channel; Region: MS_channel; pfam00924 246200000787 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 246200000788 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 246200000789 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 246200000790 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 246200000791 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 246200000792 hexamer interface [polypeptide binding]; other site 246200000793 ligand binding site [chemical binding]; other site 246200000794 putative active site [active] 246200000795 NAD(P) binding site [chemical binding]; other site 246200000796 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200000797 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 246200000798 putative DNA binding site [nucleotide binding]; other site 246200000799 putative Zn2+ binding site [ion binding]; other site 246200000800 AsnC family; Region: AsnC_trans_reg; pfam01037 246200000801 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 246200000802 Transcriptional regulators [Transcription]; Region: MarR; COG1846 246200000803 MarR family; Region: MarR_2; pfam12802 246200000804 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 246200000805 Cytochrome P450; Region: p450; cl12078 246200000806 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 246200000807 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 246200000808 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200000809 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200000810 EamA-like transporter family; Region: EamA; pfam00892 246200000811 EamA-like transporter family; Region: EamA; pfam00892 246200000812 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 246200000813 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 246200000814 COQ9; Region: COQ9; pfam08511 246200000815 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 246200000816 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 246200000817 NAD(P) binding site [chemical binding]; other site 246200000818 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 246200000819 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 246200000820 NADP binding site [chemical binding]; other site 246200000821 dimer interface [polypeptide binding]; other site 246200000822 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200000823 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 246200000824 AsnC family; Region: AsnC_trans_reg; pfam01037 246200000825 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 246200000826 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200000827 aldehyde dehydrogenase family 7 member; Region: PLN02315 246200000828 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 246200000829 tetrameric interface [polypeptide binding]; other site 246200000830 NAD binding site [chemical binding]; other site 246200000831 catalytic residues [active] 246200000832 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 246200000833 Glycerophosphodiester phosphodiesterase domain of putative Silicibacter pomeroyi glycerophosphodiester phosphodiesterase and similar proteins; Region: GDPD_SpGDE_like; cd08567 246200000834 active site 246200000835 catalytic site [active] 246200000836 metal binding site [ion binding]; metal-binding site 246200000837 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 246200000838 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 246200000839 Walker A/P-loop; other site 246200000840 ATP binding site [chemical binding]; other site 246200000841 Q-loop/lid; other site 246200000842 ABC transporter signature motif; other site 246200000843 Walker B; other site 246200000844 D-loop; other site 246200000845 H-loop/switch region; other site 246200000846 TOBE domain; Region: TOBE_2; pfam08402 246200000847 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 246200000848 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 246200000849 dimer interface [polypeptide binding]; other site 246200000850 conserved gate region; other site 246200000851 ABC-ATPase subunit interface; other site 246200000852 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 246200000853 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 246200000854 dimer interface [polypeptide binding]; other site 246200000855 conserved gate region; other site 246200000856 putative PBP binding loops; other site 246200000857 ABC-ATPase subunit interface; other site 246200000858 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 246200000859 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 246200000860 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 246200000861 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200000862 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 246200000863 putative dimerization interface [polypeptide binding]; other site 246200000864 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 246200000865 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 246200000866 TPP-binding site; other site 246200000867 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 246200000868 PYR/PP interface [polypeptide binding]; other site 246200000869 dimer interface [polypeptide binding]; other site 246200000870 TPP binding site [chemical binding]; other site 246200000871 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 246200000872 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 246200000873 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 246200000874 substrate binding pocket [chemical binding]; other site 246200000875 chain length determination region; other site 246200000876 substrate-Mg2+ binding site; other site 246200000877 catalytic residues [active] 246200000878 aspartate-rich region 1; other site 246200000879 active site lid residues [active] 246200000880 aspartate-rich region 2; other site 246200000881 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 246200000882 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 246200000883 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 246200000884 putative active site [active] 246200000885 Zn binding site [ion binding]; other site 246200000886 osmolarity response regulator; Provisional; Region: ompR; PRK09468 246200000887 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 246200000888 active site 246200000889 phosphorylation site [posttranslational modification] 246200000890 intermolecular recognition site; other site 246200000891 dimerization interface [polypeptide binding]; other site 246200000892 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 246200000893 DNA binding site [nucleotide binding] 246200000894 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 246200000895 MarR family; Region: MarR_2; pfam12802 246200000896 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 246200000897 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 246200000898 homodimer interface [polypeptide binding]; other site 246200000899 substrate-cofactor binding pocket; other site 246200000900 catalytic residue [active] 246200000901 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 246200000902 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 246200000903 MarR family; Region: MarR; pfam01047 246200000904 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 246200000905 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 246200000906 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 246200000907 Cupin; Region: Cupin_6; pfam12852 246200000908 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200000909 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 246200000910 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 246200000911 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 246200000912 putative active site [active] 246200000913 putative metal binding site [ion binding]; other site 246200000914 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 246200000915 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 246200000916 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200000917 EamA-like transporter family; Region: EamA; cl17759 246200000918 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 246200000919 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 246200000920 homodimer interface [polypeptide binding]; other site 246200000921 Walker A motif; other site 246200000922 ATP binding site [chemical binding]; other site 246200000923 hydroxycobalamin binding site [chemical binding]; other site 246200000924 Walker B motif; other site 246200000925 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200000926 EamA-like transporter family; Region: EamA; cl17759 246200000927 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 246200000928 CoA-transferase family III; Region: CoA_transf_3; pfam02515 246200000929 Membrane transport protein; Region: Mem_trans; cl09117 246200000930 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 246200000931 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 246200000932 Zn2+ binding site [ion binding]; other site 246200000933 Mg2+ binding site [ion binding]; other site 246200000934 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 246200000935 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 246200000936 Tetramer interface [polypeptide binding]; other site 246200000937 active site 246200000938 FMN-binding site [chemical binding]; other site 246200000939 riboflavin synthase subunit beta; Provisional; Region: PRK12419 246200000940 active site 246200000941 homopentamer interface [polypeptide binding]; other site 246200000942 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 246200000943 putative glutathione S-transferase; Provisional; Region: PRK10357 246200000944 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 246200000945 putative C-terminal domain interface [polypeptide binding]; other site 246200000946 putative GSH binding site (G-site) [chemical binding]; other site 246200000947 putative dimer interface [polypeptide binding]; other site 246200000948 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 246200000949 N-terminal domain interface [polypeptide binding]; other site 246200000950 dimer interface [polypeptide binding]; other site 246200000951 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 246200000952 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 246200000953 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 246200000954 [2Fe-2S] cluster binding site [ion binding]; other site 246200000955 cytochrome b; Provisional; Region: CYTB; MTH00191 246200000956 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 246200000957 intrachain domain interface; other site 246200000958 interchain domain interface [polypeptide binding]; other site 246200000959 heme bH binding site [chemical binding]; other site 246200000960 Qi binding site; other site 246200000961 heme bL binding site [chemical binding]; other site 246200000962 Qo binding site; other site 246200000963 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 246200000964 interchain domain interface [polypeptide binding]; other site 246200000965 intrachain domain interface; other site 246200000966 Qi binding site; other site 246200000967 Qo binding site; other site 246200000968 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 246200000969 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 246200000970 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 246200000971 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 246200000972 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200000973 DNA binding residues [nucleotide binding] 246200000974 dimerization interface [polypeptide binding]; other site 246200000975 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 246200000976 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 246200000977 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 246200000978 FeS/SAM binding site; other site 246200000979 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 246200000980 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 246200000981 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 246200000982 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 246200000983 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 246200000984 dihydroorotase; Validated; Region: PRK09059 246200000985 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 246200000986 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 246200000987 active site 246200000988 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 246200000989 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 246200000990 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 246200000991 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 246200000992 Fe-S cluster binding site [ion binding]; other site 246200000993 active site 246200000994 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 246200000995 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 246200000996 active site 246200000997 metal binding site [ion binding]; metal-binding site 246200000998 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 246200000999 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 246200001000 MPT binding site; other site 246200001001 trimer interface [polypeptide binding]; other site 246200001002 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 246200001003 HlyD family secretion protein; Region: HlyD_3; pfam13437 246200001004 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 246200001005 Protein export membrane protein; Region: SecD_SecF; cl14618 246200001006 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 246200001007 nudix motif; other site 246200001008 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 246200001009 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 246200001010 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 246200001011 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 246200001012 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200001013 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200001014 active site 246200001015 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 246200001016 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 246200001017 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 246200001018 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 246200001019 active site 246200001020 catalytic site [active] 246200001021 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 246200001022 AzlC protein; Region: AzlC; pfam03591 246200001023 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 246200001024 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 246200001025 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 246200001026 GTP binding site; other site 246200001027 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 246200001028 Walker A motif; other site 246200001029 putative molybdopterin-guanine dinucleotide biosynthesis protein MobB/unknown domain fusion protein; Provisional; Region: PRK14495 246200001030 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK14690 246200001031 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 246200001032 dimer interface [polypeptide binding]; other site 246200001033 putative functional site; other site 246200001034 putative MPT binding site; other site 246200001035 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 246200001036 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 246200001037 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 246200001038 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200001039 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 246200001040 active site 246200001041 metal binding site [ion binding]; metal-binding site 246200001042 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 246200001043 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 246200001044 DNA binding residues [nucleotide binding] 246200001045 dimer interface [polypeptide binding]; other site 246200001046 [2Fe-2S] cluster binding site [ion binding]; other site 246200001047 EthD domain; Region: EthD; cl17553 246200001048 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 246200001049 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 246200001050 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 246200001051 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 246200001052 binding surface 246200001053 TPR motif; other site 246200001054 TPR repeat; Region: TPR_11; pfam13414 246200001055 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 246200001056 binding surface 246200001057 TPR motif; other site 246200001058 TPR repeat; Region: TPR_11; pfam13414 246200001059 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 246200001060 binding surface 246200001061 TPR motif; other site 246200001062 TPR repeat; Region: TPR_11; pfam13414 246200001063 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 246200001064 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 246200001065 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 246200001066 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 246200001067 substrate binding pocket [chemical binding]; other site 246200001068 chain length determination region; other site 246200001069 substrate-Mg2+ binding site; other site 246200001070 catalytic residues [active] 246200001071 aspartate-rich region 1; other site 246200001072 active site lid residues [active] 246200001073 aspartate-rich region 2; other site 246200001074 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 246200001075 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 246200001076 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 246200001077 S-adenosylmethionine binding site [chemical binding]; other site 246200001078 Protein of unknown function (DUF465); Region: DUF465; cl01070 246200001079 EamA-like transporter family; Region: EamA; cl17759 246200001080 aromatic amino acid exporter; Provisional; Region: PRK11689 246200001081 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200001082 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200001083 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 246200001084 dimerization interface [polypeptide binding]; other site 246200001085 substrate binding pocket [chemical binding]; other site 246200001086 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 246200001087 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 246200001088 NAD(P) binding site [chemical binding]; other site 246200001089 homotetramer interface [polypeptide binding]; other site 246200001090 homodimer interface [polypeptide binding]; other site 246200001091 active site 246200001092 putative acyltransferase; Provisional; Region: PRK05790 246200001093 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 246200001094 dimer interface [polypeptide binding]; other site 246200001095 active site 246200001096 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 246200001097 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 246200001098 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 246200001099 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 246200001100 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 246200001101 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 246200001102 catalytic residues [active] 246200001103 argininosuccinate lyase; Provisional; Region: PRK00855 246200001104 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 246200001105 active sites [active] 246200001106 tetramer interface [polypeptide binding]; other site 246200001107 diaminopimelate decarboxylase; Region: lysA; TIGR01048 246200001108 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 246200001109 active site 246200001110 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 246200001111 substrate binding site [chemical binding]; other site 246200001112 catalytic residues [active] 246200001113 dimer interface [polypeptide binding]; other site 246200001114 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 246200001115 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 246200001116 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 246200001117 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 246200001118 Walker A/P-loop; other site 246200001119 ATP binding site [chemical binding]; other site 246200001120 Q-loop/lid; other site 246200001121 ABC transporter signature motif; other site 246200001122 Walker B; other site 246200001123 D-loop; other site 246200001124 H-loop/switch region; other site 246200001125 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 246200001126 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 246200001127 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 246200001128 putative acyl-acceptor binding pocket; other site 246200001129 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 246200001130 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 246200001131 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 246200001132 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 246200001133 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 246200001134 E3 interaction surface; other site 246200001135 lipoyl attachment site [posttranslational modification]; other site 246200001136 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 246200001137 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 246200001138 E3 interaction surface; other site 246200001139 lipoyl attachment site [posttranslational modification]; other site 246200001140 e3 binding domain; Region: E3_binding; pfam02817 246200001141 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 246200001142 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 246200001143 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 246200001144 TPP-binding site [chemical binding]; other site 246200001145 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 246200001146 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200001147 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 246200001148 Protein of unknown function (DUF805); Region: DUF805; pfam05656 246200001149 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 246200001150 CoA binding domain; Region: CoA_binding; pfam02629 246200001151 CoA-ligase; Region: Ligase_CoA; pfam00549 246200001152 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 246200001153 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 246200001154 CoA-ligase; Region: Ligase_CoA; pfam00549 246200001155 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 246200001156 malate dehydrogenase; Reviewed; Region: PRK06223 246200001157 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 246200001158 NAD(P) binding site [chemical binding]; other site 246200001159 dimer interface [polypeptide binding]; other site 246200001160 tetramer (dimer of dimers) interface [polypeptide binding]; other site 246200001161 substrate binding site [chemical binding]; other site 246200001162 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 246200001163 NnrU protein; Region: NnrU; pfam07298 246200001164 Domain of unknown function (DUF1737); Region: DUF1737; cl10503 246200001165 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 246200001166 putative active site [active] 246200001167 putative catalytic site [active] 246200001168 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 246200001169 putative active site [active] 246200001170 putative catalytic site [active] 246200001171 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 246200001172 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 246200001173 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 246200001174 metal ion-dependent adhesion site (MIDAS); other site 246200001175 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 246200001176 Iron-sulfur protein interface; other site 246200001177 proximal quinone binding site [chemical binding]; other site 246200001178 SdhD (CybS) interface [polypeptide binding]; other site 246200001179 proximal heme binding site [chemical binding]; other site 246200001180 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 246200001181 putative SdhC subunit interface [polypeptide binding]; other site 246200001182 putative proximal heme binding site [chemical binding]; other site 246200001183 putative Iron-sulfur protein interface [polypeptide binding]; other site 246200001184 putative proximal quinone binding site; other site 246200001185 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 246200001186 L-aspartate oxidase; Provisional; Region: PRK06175 246200001187 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 246200001188 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 246200001189 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 246200001190 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200001191 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 246200001192 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 246200001193 dimer interface [polypeptide binding]; other site 246200001194 active site 246200001195 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 246200001196 catalytic residues [active] 246200001197 substrate binding site [chemical binding]; other site 246200001198 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 246200001199 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 246200001200 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 246200001201 K-box region; Region: K-box; pfam01486 246200001202 H-NS histone family; Region: Histone_HNS; pfam00816 246200001203 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 246200001204 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 246200001205 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 246200001206 B12 binding site [chemical binding]; other site 246200001207 cobalt ligand [ion binding]; other site 246200001208 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 246200001209 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 246200001210 putative acyl-acceptor binding pocket; other site 246200001211 crotonyl-CoA reductase; Region: crotonyl_coA_red; cd08246 246200001212 crotonyl-CoA reductase; Region: crot-CoA-red; TIGR01751 246200001213 putative NAD(P) binding site [chemical binding]; other site 246200001214 Autoinducer binding domain; Region: Autoind_bind; pfam03472 246200001215 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 246200001216 DNA binding residues [nucleotide binding] 246200001217 dimerization interface [polypeptide binding]; other site 246200001218 Autoinducer synthetase; Region: Autoind_synth; cl17404 246200001219 AAA domain; Region: AAA_30; pfam13604 246200001220 Family description; Region: UvrD_C_2; pfam13538 246200001221 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 246200001222 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 246200001223 hypothetical protein; Provisional; Region: PRK10621 246200001224 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 246200001225 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 246200001226 TM-ABC transporter signature motif; other site 246200001227 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 246200001228 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 246200001229 TM-ABC transporter signature motif; other site 246200001230 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 246200001231 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 246200001232 Walker A/P-loop; other site 246200001233 ATP binding site [chemical binding]; other site 246200001234 Q-loop/lid; other site 246200001235 ABC transporter signature motif; other site 246200001236 Walker B; other site 246200001237 D-loop; other site 246200001238 H-loop/switch region; other site 246200001239 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 246200001240 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 246200001241 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 246200001242 ligand binding site [chemical binding]; other site 246200001243 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 246200001244 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 246200001245 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 246200001246 Glycoprotease family; Region: Peptidase_M22; pfam00814 246200001247 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 246200001248 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 246200001249 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 246200001250 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 246200001251 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 246200001252 CGNR zinc finger; Region: zf-CGNR; pfam11706 246200001253 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 246200001254 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 246200001255 putative catalytic residue [active] 246200001256 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 246200001257 Ligand Binding Site [chemical binding]; other site 246200001258 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 246200001259 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 246200001260 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 246200001261 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 246200001262 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...; Region: PLPDE_IV; cd00449 246200001263 homodimer interface [polypeptide binding]; other site 246200001264 substrate-cofactor binding pocket; other site 246200001265 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200001266 catalytic residue [active] 246200001267 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 246200001268 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 246200001269 putative DNA binding site [nucleotide binding]; other site 246200001270 putative Zn2+ binding site [ion binding]; other site 246200001271 AsnC family; Region: AsnC_trans_reg; pfam01037 246200001272 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 246200001273 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 246200001274 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 246200001275 NAD binding site [chemical binding]; other site 246200001276 Phe binding site; other site 246200001277 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 246200001278 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200001279 putative metal binding site [ion binding]; other site 246200001280 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 246200001281 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 246200001282 active site 246200001283 HIGH motif; other site 246200001284 dimer interface [polypeptide binding]; other site 246200001285 KMSKS motif; other site 246200001286 Rhomboid family; Region: Rhomboid; pfam01694 246200001287 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 246200001288 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 246200001289 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 246200001290 ligand binding site [chemical binding]; other site 246200001291 flexible hinge region; other site 246200001292 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; cl17320 246200001293 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 246200001294 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 246200001295 PII uridylyl-transferase; Provisional; Region: PRK05092 246200001296 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 246200001297 metal binding triad; other site 246200001298 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 246200001299 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 246200001300 Zn2+ binding site [ion binding]; other site 246200001301 Mg2+ binding site [ion binding]; other site 246200001302 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 246200001303 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 246200001304 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 246200001305 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 246200001306 putative ligand binding site [chemical binding]; other site 246200001307 Predicted methyltransferases [General function prediction only]; Region: COG0313 246200001308 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 246200001309 putative SAM binding site [chemical binding]; other site 246200001310 putative homodimer interface [polypeptide binding]; other site 246200001311 hypothetical protein; Provisional; Region: PRK14676 246200001312 glutathione synthetase; Provisional; Region: PRK05246 246200001313 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 246200001314 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 246200001315 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 246200001316 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 246200001317 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 246200001318 Walker A motif; other site 246200001319 ATP binding site [chemical binding]; other site 246200001320 Walker B motif; other site 246200001321 arginine finger; other site 246200001322 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 246200001323 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 246200001324 glutathione S-transferase; Provisional; Region: PRK15113 246200001325 putative C-terminal domain interface [polypeptide binding]; other site 246200001326 putative GSH binding site (G-site) [chemical binding]; other site 246200001327 putative dimer interface [polypeptide binding]; other site 246200001328 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 246200001329 putative N-terminal domain interface [polypeptide binding]; other site 246200001330 putative dimer interface [polypeptide binding]; other site 246200001331 putative substrate binding pocket (H-site) [chemical binding]; other site 246200001332 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 246200001333 catalytic core [active] 246200001334 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 246200001335 homotrimer interface [polypeptide binding]; other site 246200001336 Walker A motif; other site 246200001337 GTP binding site [chemical binding]; other site 246200001338 Walker B motif; other site 246200001339 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 246200001340 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 246200001341 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 246200001342 DNA binding residues [nucleotide binding] 246200001343 Protein of unknown function, DUF399; Region: DUF399; pfam04187 246200001344 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 246200001345 Flavoprotein; Region: Flavoprotein; pfam02441 246200001346 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 246200001347 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 246200001348 trimer interface [polypeptide binding]; other site 246200001349 active site 246200001350 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 246200001351 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 246200001352 ATP binding site [chemical binding]; other site 246200001353 substrate interface [chemical binding]; other site 246200001354 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 246200001355 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 246200001356 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200001357 catalytic residue [active] 246200001358 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 246200001359 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 246200001360 active site 246200001361 Zn binding site [ion binding]; other site 246200001362 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 246200001363 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 246200001364 putative ligand binding site [chemical binding]; other site 246200001365 NAD binding site [chemical binding]; other site 246200001366 dimerization interface [polypeptide binding]; other site 246200001367 catalytic site [active] 246200001368 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 246200001369 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 246200001370 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 246200001371 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 246200001372 rod shape-determining protein MreC; Provisional; Region: PRK13922 246200001373 rod shape-determining protein MreC; Region: MreC; pfam04085 246200001374 rod shape-determining protein MreB; Provisional; Region: PRK13927 246200001375 MreB and similar proteins; Region: MreB_like; cd10225 246200001376 nucleotide binding site [chemical binding]; other site 246200001377 Mg binding site [ion binding]; other site 246200001378 putative protofilament interaction site [polypeptide binding]; other site 246200001379 RodZ interaction site [polypeptide binding]; other site 246200001380 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 246200001381 2-isopropylmalate synthase; Validated; Region: PRK00915 246200001382 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 246200001383 active site 246200001384 catalytic residues [active] 246200001385 metal binding site [ion binding]; metal-binding site 246200001386 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 246200001387 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 246200001388 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 246200001389 non-specific DNA binding site [nucleotide binding]; other site 246200001390 salt bridge; other site 246200001391 sequence-specific DNA binding site [nucleotide binding]; other site 246200001392 Cupin domain; Region: Cupin_2; pfam07883 246200001393 H+ Antiporter protein; Region: 2A0121; TIGR00900 246200001394 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 246200001395 putative substrate translocation pore; other site 246200001396 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 246200001397 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 246200001398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4642 246200001399 MORN repeat; Region: MORN; cl14787 246200001400 NAD synthetase; Provisional; Region: PRK13981 246200001401 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 246200001402 multimer interface [polypeptide binding]; other site 246200001403 active site 246200001404 catalytic triad [active] 246200001405 protein interface 1 [polypeptide binding]; other site 246200001406 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 246200001407 homodimer interface [polypeptide binding]; other site 246200001408 NAD binding pocket [chemical binding]; other site 246200001409 ATP binding pocket [chemical binding]; other site 246200001410 Mg binding site [ion binding]; other site 246200001411 active-site loop [active] 246200001412 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200001413 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 246200001414 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 246200001415 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 246200001416 HIGH motif; other site 246200001417 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 246200001418 active site 246200001419 KMSKS motif; other site 246200001420 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 246200001421 putative active site pocket [active] 246200001422 dimerization interface [polypeptide binding]; other site 246200001423 putative catalytic residue [active] 246200001424 Transcriptional regulator; Region: Rrf2; cl17282 246200001425 Rrf2 family protein; Region: rrf2_super; TIGR00738 246200001426 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 246200001427 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 246200001428 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 246200001429 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 246200001430 Walker A/P-loop; other site 246200001431 ATP binding site [chemical binding]; other site 246200001432 Q-loop/lid; other site 246200001433 ABC transporter signature motif; other site 246200001434 Walker B; other site 246200001435 D-loop; other site 246200001436 H-loop/switch region; other site 246200001437 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 246200001438 active site 246200001439 catalytic triad [active] 246200001440 oxyanion hole [active] 246200001441 switch loop; other site 246200001442 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 246200001443 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 246200001444 DNA-binding site [nucleotide binding]; DNA binding site 246200001445 RNA-binding motif; other site 246200001446 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 246200001447 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 246200001448 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 246200001449 thioredoxin 2; Provisional; Region: PRK10996 246200001450 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 246200001451 catalytic residues [active] 246200001452 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 246200001453 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 246200001454 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 246200001455 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 246200001456 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 246200001457 ABC transporter; Region: ABC_tran_2; pfam12848 246200001458 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 246200001459 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 246200001460 MOSC domain; Region: MOSC; pfam03473 246200001461 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 246200001462 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 246200001463 active site 246200001464 (T/H)XGH motif; other site 246200001465 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 246200001466 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 246200001467 tellurite resistance protein terB; Region: terB; cd07176 246200001468 putative metal binding site [ion binding]; other site 246200001469 Cupin domain; Region: Cupin_2; pfam07883 246200001470 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 246200001471 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200001472 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 246200001473 dimerization interface [polypeptide binding]; other site 246200001474 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 246200001475 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 246200001476 active site 246200001477 nucleotide binding site [chemical binding]; other site 246200001478 HIGH motif; other site 246200001479 KMSKS motif; other site 246200001480 Domain of unknown function (DUF4389); Region: DUF4389; pfam14333 246200001481 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 246200001482 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 246200001483 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 246200001484 P-loop; other site 246200001485 Magnesium ion binding site [ion binding]; other site 246200001486 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 246200001487 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 246200001488 Ligand Binding Site [chemical binding]; other site 246200001489 Zc3h12a-like Ribonuclease NYN domain; Region: RNase_Zc3h12a; pfam11977 246200001490 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 246200001491 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 246200001492 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 246200001493 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200001494 DNA-binding site [nucleotide binding]; DNA binding site 246200001495 UTRA domain; Region: UTRA; pfam07702 246200001496 Phosphonate metabolism protein PhnG; Region: PhnG; pfam06754 246200001497 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; pfam05845 246200001498 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 246200001499 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 246200001500 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 246200001501 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200001502 Walker A/P-loop; other site 246200001503 ATP binding site [chemical binding]; other site 246200001504 Q-loop/lid; other site 246200001505 ABC transporter signature motif; other site 246200001506 Walker B; other site 246200001507 D-loop; other site 246200001508 H-loop/switch region; other site 246200001509 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200001510 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 246200001511 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200001512 Walker A/P-loop; other site 246200001513 ATP binding site [chemical binding]; other site 246200001514 Q-loop/lid; other site 246200001515 ABC transporter signature motif; other site 246200001516 Walker B; other site 246200001517 D-loop; other site 246200001518 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 246200001519 active site 246200001520 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 246200001521 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 246200001522 Amidohydrolase; Region: Amidohydro_5; pfam13594 246200001523 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 246200001524 active site 246200001525 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 246200001526 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 246200001527 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 246200001528 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 246200001529 Coenzyme A binding pocket [chemical binding]; other site 246200001530 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 246200001531 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 246200001532 Phage Tail Collar Domain; Region: Collar; pfam07484 246200001533 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 246200001534 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 246200001535 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 246200001536 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 246200001537 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 246200001538 putative translocon binding site; other site 246200001539 protein-rRNA interface [nucleotide binding]; other site 246200001540 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 246200001541 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 246200001542 G-X-X-G motif; other site 246200001543 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 246200001544 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 246200001545 23S rRNA interface [nucleotide binding]; other site 246200001546 5S rRNA interface [nucleotide binding]; other site 246200001547 putative antibiotic binding site [chemical binding]; other site 246200001548 L25 interface [polypeptide binding]; other site 246200001549 L27 interface [polypeptide binding]; other site 246200001550 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 246200001551 conserved hypothetical protein; Region: TIGR02466 246200001552 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 246200001553 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 246200001554 ligand binding site [chemical binding]; other site 246200001555 flexible hinge region; other site 246200001556 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 246200001557 23S rRNA interface [nucleotide binding]; other site 246200001558 putative translocon interaction site; other site 246200001559 signal recognition particle (SRP54) interaction site; other site 246200001560 L23 interface [polypeptide binding]; other site 246200001561 trigger factor interaction site; other site 246200001562 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 246200001563 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 246200001564 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 246200001565 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 246200001566 RNA binding site [nucleotide binding]; other site 246200001567 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 246200001568 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 246200001569 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 246200001570 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 246200001571 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 246200001572 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 246200001573 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 246200001574 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 246200001575 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 246200001576 5S rRNA interface [nucleotide binding]; other site 246200001577 23S rRNA interface [nucleotide binding]; other site 246200001578 L5 interface [polypeptide binding]; other site 246200001579 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 246200001580 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 246200001581 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 246200001582 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 246200001583 23S rRNA binding site [nucleotide binding]; other site 246200001584 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 246200001585 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 246200001586 SecY translocase; Region: SecY; pfam00344 246200001587 adenylate kinase; Reviewed; Region: adk; PRK00279 246200001588 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 246200001589 AMP-binding site [chemical binding]; other site 246200001590 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 246200001591 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200001592 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 246200001593 30S ribosomal protein S13; Region: bact_S13; TIGR03631 246200001594 30S ribosomal protein S11; Validated; Region: PRK05309 246200001595 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 246200001596 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 246200001597 alphaNTD - beta interaction site [polypeptide binding]; other site 246200001598 alphaNTD homodimer interface [polypeptide binding]; other site 246200001599 alphaNTD - beta' interaction site [polypeptide binding]; other site 246200001600 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 246200001601 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 246200001602 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 246200001603 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 246200001604 protein binding site [polypeptide binding]; other site 246200001605 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 246200001606 protein binding site [polypeptide binding]; other site 246200001607 recombination factor protein RarA; Reviewed; Region: PRK13342 246200001608 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 246200001609 Walker A motif; other site 246200001610 ATP binding site [chemical binding]; other site 246200001611 Walker B motif; other site 246200001612 arginine finger; other site 246200001613 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 246200001614 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 246200001615 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 246200001616 RNA binding surface [nucleotide binding]; other site 246200001617 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 246200001618 active site 246200001619 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 246200001620 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 246200001621 motif II; other site 246200001622 ATP12 chaperone protein; Region: ATP12; cl02228 246200001623 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 246200001624 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 246200001625 substrate binding pocket [chemical binding]; other site 246200001626 membrane-bound complex binding site; other site 246200001627 hinge residues; other site 246200001628 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 246200001629 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 246200001630 conserved gate region; other site 246200001631 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 246200001632 dimer interface [polypeptide binding]; other site 246200001633 ABC-ATPase subunit interface; other site 246200001634 putative PBP binding loops; other site 246200001635 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 246200001636 dimer interface [polypeptide binding]; other site 246200001637 conserved gate region; other site 246200001638 putative PBP binding loops; other site 246200001639 ABC-ATPase subunit interface; other site 246200001640 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 246200001641 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 246200001642 Walker A/P-loop; other site 246200001643 ATP binding site [chemical binding]; other site 246200001644 Q-loop/lid; other site 246200001645 ABC transporter signature motif; other site 246200001646 Walker B; other site 246200001647 D-loop; other site 246200001648 H-loop/switch region; other site 246200001649 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 246200001650 catalytic core [active] 246200001651 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 246200001652 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 246200001653 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 246200001654 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 246200001655 feedback inhibition sensing region; other site 246200001656 homohexameric interface [polypeptide binding]; other site 246200001657 nucleotide binding site [chemical binding]; other site 246200001658 N-acetyl-L-glutamate binding site [chemical binding]; other site 246200001659 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 246200001660 classical (c) SDRs; Region: SDR_c; cd05233 246200001661 NAD(P) binding site [chemical binding]; other site 246200001662 active site 246200001663 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 246200001664 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 246200001665 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 246200001666 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 246200001667 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 246200001668 Elongation factor Tu GTP binding domain; Region: GTP_EFTU; pfam00009 246200001669 G1 box; other site 246200001670 GTP/Mg2+ binding site [chemical binding]; other site 246200001671 Switch I region; other site 246200001672 G2 box; other site 246200001673 G3 box; other site 246200001674 Switch II region; other site 246200001675 G4 box; other site 246200001676 G5 box; other site 246200001677 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 246200001678 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 246200001679 MOSC domain; Region: MOSC; pfam03473 246200001680 membrane protein insertase; Provisional; Region: PRK01318 246200001681 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 246200001682 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 246200001683 metal binding site [ion binding]; metal-binding site 246200001684 active site 246200001685 I-site; other site 246200001686 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 246200001687 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 246200001688 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 246200001689 Ligand Binding Site [chemical binding]; other site 246200001690 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 246200001691 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 246200001692 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 246200001693 Haemolytic domain; Region: Haemolytic; pfam01809 246200001694 Ribonuclease P; Region: Ribonuclease_P; pfam00825 246200001695 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 246200001696 Uncharacterized conserved protein [Function unknown]; Region: COG0398 246200001697 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 246200001698 mercuric reductase; Validated; Region: PRK06370 246200001699 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 246200001700 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 246200001701 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 246200001702 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 246200001703 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 246200001704 ATP binding site [chemical binding]; other site 246200001705 Mg2+ binding site [ion binding]; other site 246200001706 G-X-G motif; other site 246200001707 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 246200001708 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200001709 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200001710 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200001711 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200001712 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200001713 excinuclease ABC subunit B; Provisional; Region: PRK05298 246200001714 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 246200001715 ATP binding site [chemical binding]; other site 246200001716 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 246200001717 nucleotide binding region [chemical binding]; other site 246200001718 ATP-binding site [chemical binding]; other site 246200001719 Ultra-violet resistance protein B; Region: UvrB; pfam12344 246200001720 UvrB/uvrC motif; Region: UVR; pfam02151 246200001721 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 246200001722 S-adenosyl-L-methionine methyltransferase; Region: Methyltransf_17; pfam12692 246200001723 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u4; cd10928 246200001724 NodB motif; other site 246200001725 putative active site [active] 246200001726 putative catalytic site [active] 246200001727 putative Zn binding site [ion binding]; other site 246200001728 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 246200001729 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 246200001730 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 246200001731 catalytic core [active] 246200001732 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 246200001733 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 246200001734 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 246200001735 putative ADP-binding pocket [chemical binding]; other site 246200001736 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 246200001737 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 246200001738 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 246200001739 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 246200001740 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 246200001741 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 246200001742 Mechanosensitive ion channel; Region: MS_channel; pfam00924 246200001743 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 246200001744 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 246200001745 dimer interface [polypeptide binding]; other site 246200001746 conserved gate region; other site 246200001747 putative PBP binding loops; other site 246200001748 ABC-ATPase subunit interface; other site 246200001749 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200001750 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 246200001751 dimer interface [polypeptide binding]; other site 246200001752 conserved gate region; other site 246200001753 putative PBP binding loops; other site 246200001754 ABC-ATPase subunit interface; other site 246200001755 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200001756 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 246200001757 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 246200001758 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200001759 Walker A/P-loop; other site 246200001760 ATP binding site [chemical binding]; other site 246200001761 Q-loop/lid; other site 246200001762 ABC transporter signature motif; other site 246200001763 Walker B; other site 246200001764 D-loop; other site 246200001765 H-loop/switch region; other site 246200001766 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200001767 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200001768 Walker A/P-loop; other site 246200001769 ATP binding site [chemical binding]; other site 246200001770 Q-loop/lid; other site 246200001771 ABC transporter signature motif; other site 246200001772 Walker B; other site 246200001773 D-loop; other site 246200001774 H-loop/switch region; other site 246200001775 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200001776 S-adenosyl-L-methionine methyltransferase; Region: Methyltransf_17; pfam12692 246200001777 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200001778 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 246200001779 putative C-terminal domain interface [polypeptide binding]; other site 246200001780 putative GSH binding site (G-site) [chemical binding]; other site 246200001781 putative dimer interface [polypeptide binding]; other site 246200001782 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 246200001783 putative N-terminal domain interface [polypeptide binding]; other site 246200001784 putative dimer interface [polypeptide binding]; other site 246200001785 putative substrate binding pocket (H-site) [chemical binding]; other site 246200001786 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200001787 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200001788 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200001789 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200001790 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 246200001791 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200001792 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200001793 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200001794 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200001795 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 246200001796 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 246200001797 dimer interface [polypeptide binding]; other site 246200001798 PYR/PP interface [polypeptide binding]; other site 246200001799 TPP binding site [chemical binding]; other site 246200001800 substrate binding site [chemical binding]; other site 246200001801 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 246200001802 TPP-binding site [chemical binding]; other site 246200001803 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 246200001804 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200001805 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 246200001806 putative DNA binding site [nucleotide binding]; other site 246200001807 putative Zn2+ binding site [ion binding]; other site 246200001808 AsnC family; Region: AsnC_trans_reg; pfam01037 246200001809 FecR protein; Region: FecR; pfam04773 246200001810 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 246200001811 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 246200001812 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 246200001813 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 246200001814 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 246200001815 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 246200001816 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; cl17457 246200001817 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 246200001818 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 246200001819 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 246200001820 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; cl17457 246200001821 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 246200001822 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 246200001823 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 246200001824 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 246200001825 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 246200001826 dimerization interface [polypeptide binding]; other site 246200001827 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 246200001828 cyclase homology domain; Region: CHD; cd07302 246200001829 nucleotidyl binding site; other site 246200001830 metal binding site [ion binding]; metal-binding site 246200001831 dimer interface [polypeptide binding]; other site 246200001832 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 246200001833 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 246200001834 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 246200001835 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 246200001836 Walker A/P-loop; other site 246200001837 ATP binding site [chemical binding]; other site 246200001838 Q-loop/lid; other site 246200001839 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200001840 Walker B; other site 246200001841 D-loop; other site 246200001842 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 246200001843 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 246200001844 ligand binding site [chemical binding]; other site 246200001845 flexible hinge region; other site 246200001846 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200001847 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200001848 active site 246200001849 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 246200001850 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200001851 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 246200001852 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 246200001853 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 246200001854 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 246200001855 ATP-grasp domain; Region: ATP-grasp_4; cl17255 246200001856 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 246200001857 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 246200001858 carboxyltransferase (CT) interaction site; other site 246200001859 biotinylation site [posttranslational modification]; other site 246200001860 Nitronate monooxygenase; Region: NMO; pfam03060 246200001861 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 246200001862 FMN binding site [chemical binding]; other site 246200001863 substrate binding site [chemical binding]; other site 246200001864 putative catalytic residue [active] 246200001865 TIGR03084 family protein; Region: TIGR03084 246200001866 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 246200001867 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200001868 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200001869 active site 246200001870 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200001871 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200001872 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 246200001873 dimerization interface [polypeptide binding]; other site 246200001874 aspartate aminotransferase; Provisional; Region: PRK05764 246200001875 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 246200001876 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200001877 homodimer interface [polypeptide binding]; other site 246200001878 catalytic residue [active] 246200001879 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 246200001880 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 246200001881 tetramer interface [polypeptide binding]; other site 246200001882 TPP-binding site [chemical binding]; other site 246200001883 heterodimer interface [polypeptide binding]; other site 246200001884 phosphorylation loop region [posttranslational modification] 246200001885 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 246200001886 alpha subunit interface [polypeptide binding]; other site 246200001887 TPP binding site [chemical binding]; other site 246200001888 heterodimer interface [polypeptide binding]; other site 246200001889 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 246200001890 Acyl transferase domain; Region: Acyl_transf_1; cl08282 246200001891 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 246200001892 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200001893 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200001894 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200001895 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 246200001896 substrate binding pocket [chemical binding]; other site 246200001897 dimerization interface [polypeptide binding]; other site 246200001898 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 246200001899 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 246200001900 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 246200001901 FMN-binding pocket [chemical binding]; other site 246200001902 flavin binding motif; other site 246200001903 phosphate binding motif [ion binding]; other site 246200001904 beta-alpha-beta structure motif; other site 246200001905 NAD binding pocket [chemical binding]; other site 246200001906 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 246200001907 catalytic loop [active] 246200001908 iron binding site [ion binding]; other site 246200001909 Transcriptional regulators [Transcription]; Region: PurR; COG1609 246200001910 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 246200001911 DNA binding site [nucleotide binding] 246200001912 domain linker motif; other site 246200001913 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 246200001914 putative dimerization interface [polypeptide binding]; other site 246200001915 putative ligand binding site [chemical binding]; other site 246200001916 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200001917 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 246200001918 DctM-like transporters; Region: DctM; pfam06808 246200001919 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 246200001920 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 246200001921 histidinol dehydrogenase; Region: hisD; TIGR00069 246200001922 NAD binding site [chemical binding]; other site 246200001923 dimerization interface [polypeptide binding]; other site 246200001924 product binding site; other site 246200001925 substrate binding site [chemical binding]; other site 246200001926 zinc binding site [ion binding]; other site 246200001927 catalytic residues [active] 246200001928 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200001929 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 246200001930 NAD(P) binding site [chemical binding]; other site 246200001931 active site 246200001932 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 246200001933 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 246200001934 NAD(P) binding site [chemical binding]; other site 246200001935 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 246200001936 Ligand Binding Site [chemical binding]; other site 246200001937 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 246200001938 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 246200001939 phosphate binding site [ion binding]; other site 246200001940 agmatinase; Region: agmatinase; TIGR01230 246200001941 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 246200001942 putative active site [active] 246200001943 Mn binding site [ion binding]; other site 246200001944 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 246200001945 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 246200001946 dimer interface [polypeptide binding]; other site 246200001947 active site 246200001948 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 246200001949 catalytic residues [active] 246200001950 substrate binding site [chemical binding]; other site 246200001951 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 246200001952 arginine decarboxylase; Provisional; Region: PRK05354 246200001953 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 246200001954 active site 246200001955 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 246200001956 catalytic residues [active] 246200001957 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 246200001958 putative monooxygenase; Provisional; Region: PRK11118 246200001959 MarR family; Region: MarR_2; cl17246 246200001960 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 246200001961 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 246200001962 substrate binding site [chemical binding]; other site 246200001963 Protein of unknown function (DUF521); Region: DUF521; pfam04412 246200001964 Putative Aconitase X catalytic domain; Region: AcnX; cd01355 246200001965 substrate binding site [chemical binding]; other site 246200001966 ligand binding site [chemical binding]; other site 246200001967 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 246200001968 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 246200001969 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 246200001970 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 246200001971 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 246200001972 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 246200001973 Walker A/P-loop; other site 246200001974 ATP binding site [chemical binding]; other site 246200001975 Q-loop/lid; other site 246200001976 ABC transporter signature motif; other site 246200001977 Walker B; other site 246200001978 D-loop; other site 246200001979 H-loop/switch region; other site 246200001980 TOBE domain; Region: TOBE_2; pfam08402 246200001981 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 246200001982 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 246200001983 Walker A/P-loop; other site 246200001984 ATP binding site [chemical binding]; other site 246200001985 Q-loop/lid; other site 246200001986 ABC transporter signature motif; other site 246200001987 Walker B; other site 246200001988 D-loop; other site 246200001989 H-loop/switch region; other site 246200001990 TOBE domain; Region: TOBE_2; pfam08402 246200001991 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 246200001992 dimer interface [polypeptide binding]; other site 246200001993 conserved gate region; other site 246200001994 putative PBP binding loops; other site 246200001995 ABC-ATPase subunit interface; other site 246200001996 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 246200001997 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 246200001998 dimer interface [polypeptide binding]; other site 246200001999 conserved gate region; other site 246200002000 putative PBP binding loops; other site 246200002001 ABC-ATPase subunit interface; other site 246200002002 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 246200002003 Penicillinase repressor; Region: Pencillinase_R; pfam03965 246200002004 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 246200002005 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 246200002006 Zeta-crystallin with NADP-dependent quinone reductase activity (QOR); Region: zeta_crystallin; cd08253 246200002007 NAD(P) binding site [chemical binding]; other site 246200002008 Helix-turn-helix domain; Region: HTH_18; pfam12833 246200002009 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200002010 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 246200002011 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 246200002012 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 246200002013 Methyltransferase domain; Region: Methyltransf_23; pfam13489 246200002014 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 246200002015 S-adenosylmethionine binding site [chemical binding]; other site 246200002016 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 246200002017 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 246200002018 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 246200002019 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 246200002020 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 246200002021 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 246200002022 Transposase; Region: DEDD_Tnp_IS110; pfam01548 246200002023 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 246200002024 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 246200002025 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 246200002026 Putative proton exit pathway; other site 246200002027 RNA ligase; Region: RNA_ligase; pfam09414 246200002028 Integrase core domain; Region: rve; pfam00665 246200002029 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 246200002030 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 246200002031 Bacterial SH3 domain; Region: SH3_4; pfam06347 246200002032 Bacterial SH3 domain; Region: SH3_4; pfam06347 246200002033 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 246200002034 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 246200002035 dimerization interface [polypeptide binding]; other site 246200002036 ligand binding site [chemical binding]; other site 246200002037 NADP binding site [chemical binding]; other site 246200002038 catalytic site [active] 246200002039 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 246200002040 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 246200002041 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 246200002042 FAD binding domain; Region: FAD_binding_4; pfam01565 246200002043 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200002044 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200002045 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200002046 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200002047 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 246200002048 Ca2+ binding site [ion binding]; other site 246200002049 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 246200002050 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200002051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200002052 LysR substrate binding domain; Region: LysR_substrate; pfam03466 246200002053 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 246200002054 Protein of unknown function (DUF938); Region: DUF938; pfam06080 246200002055 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 246200002056 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200002057 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 246200002058 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 246200002059 active site 246200002060 catalytic tetrad [active] 246200002061 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 246200002062 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 246200002063 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 246200002064 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 246200002065 putative ligand binding site [chemical binding]; other site 246200002066 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 246200002067 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 246200002068 TM-ABC transporter signature motif; other site 246200002069 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 246200002070 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 246200002071 TM-ABC transporter signature motif; other site 246200002072 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 246200002073 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 246200002074 Walker A/P-loop; other site 246200002075 ATP binding site [chemical binding]; other site 246200002076 Q-loop/lid; other site 246200002077 ABC transporter signature motif; other site 246200002078 Walker B; other site 246200002079 D-loop; other site 246200002080 H-loop/switch region; other site 246200002081 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 246200002082 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 246200002083 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 246200002084 XdhC Rossmann domain; Region: XdhC_C; pfam13478 246200002085 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 246200002086 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 246200002087 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 246200002088 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 246200002089 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 246200002090 catalytic loop [active] 246200002091 iron binding site [ion binding]; other site 246200002092 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 246200002093 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 246200002094 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 246200002095 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 246200002096 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 246200002097 putative active site [active] 246200002098 putative PHP Thumb interface [polypeptide binding]; other site 246200002099 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 246200002100 generic binding surface II; other site 246200002101 generic binding surface I; other site 246200002102 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 246200002103 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 246200002104 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 246200002105 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 246200002106 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 246200002107 active site 246200002108 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200002109 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200002110 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 246200002111 putative substrate binding pocket [chemical binding]; other site 246200002112 dimerization interface [polypeptide binding]; other site 246200002113 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200002114 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 246200002115 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200002116 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 246200002117 dimer interface [polypeptide binding]; other site 246200002118 conserved gate region; other site 246200002119 putative PBP binding loops; other site 246200002120 ABC-ATPase subunit interface; other site 246200002121 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 246200002122 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 246200002123 dimer interface [polypeptide binding]; other site 246200002124 conserved gate region; other site 246200002125 putative PBP binding loops; other site 246200002126 ABC-ATPase subunit interface; other site 246200002127 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 246200002128 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200002129 Walker A/P-loop; other site 246200002130 ATP binding site [chemical binding]; other site 246200002131 Q-loop/lid; other site 246200002132 ABC transporter signature motif; other site 246200002133 Walker B; other site 246200002134 D-loop; other site 246200002135 H-loop/switch region; other site 246200002136 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 246200002137 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200002138 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 246200002139 Walker A/P-loop; other site 246200002140 ATP binding site [chemical binding]; other site 246200002141 Q-loop/lid; other site 246200002142 ABC transporter signature motif; other site 246200002143 Walker B; other site 246200002144 D-loop; other site 246200002145 H-loop/switch region; other site 246200002146 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200002147 SlyX; Region: SlyX; pfam04102 246200002148 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 246200002149 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 246200002150 substrate binding site [chemical binding]; other site 246200002151 oxyanion hole (OAH) forming residues; other site 246200002152 trimer interface [polypeptide binding]; other site 246200002153 histidyl-tRNA synthetase; Region: hisS; TIGR00442 246200002154 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 246200002155 dimer interface [polypeptide binding]; other site 246200002156 motif 1; other site 246200002157 motif 2; other site 246200002158 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 246200002159 active site 246200002160 motif 3; other site 246200002161 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 246200002162 anticodon binding site; other site 246200002163 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 246200002164 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 246200002165 motif 1; other site 246200002166 dimer interface [polypeptide binding]; other site 246200002167 active site 246200002168 motif 2; other site 246200002169 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 246200002170 motif 3; other site 246200002171 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 246200002172 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 246200002173 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 246200002174 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 246200002175 putative active site [active] 246200002176 putative PHP Thumb interface [polypeptide binding]; other site 246200002177 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 246200002178 generic binding surface I; other site 246200002179 generic binding surface II; other site 246200002180 DNA Polymerase Y-family; Region: PolY_like; cd03468 246200002181 active site 246200002182 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 246200002183 DNA binding site [nucleotide binding] 246200002184 Uncharacterized conserved protein [Function unknown]; Region: COG4544 246200002185 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 246200002186 aminotransferase; Validated; Region: PRK07678 246200002187 inhibitor-cofactor binding pocket; inhibition site 246200002188 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200002189 catalytic residue [active] 246200002190 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 246200002191 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; cl17432 246200002192 ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG4525 246200002193 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 246200002194 Walker A/P-loop; other site 246200002195 ATP binding site [chemical binding]; other site 246200002196 Q-loop/lid; other site 246200002197 ABC transporter signature motif; other site 246200002198 Walker B; other site 246200002199 D-loop; other site 246200002200 H-loop/switch region; other site 246200002201 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 246200002202 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 246200002203 dimer interface [polypeptide binding]; other site 246200002204 conserved gate region; other site 246200002205 putative PBP binding loops; other site 246200002206 ABC-ATPase subunit interface; other site 246200002207 acyl-CoA synthetase; Validated; Region: PRK08162 246200002208 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 246200002209 acyl-activating enzyme (AAE) consensus motif; other site 246200002210 putative active site [active] 246200002211 AMP binding site [chemical binding]; other site 246200002212 putative CoA binding site [chemical binding]; other site 246200002213 agmatinase; Region: agmatinase; TIGR01230 246200002214 Agmatinase and related proteins; Region: Agmatinase_like_1; cd11589 246200002215 oligomer interface [polypeptide binding]; other site 246200002216 active site 246200002217 Mn binding site [ion binding]; other site 246200002218 maleylacetoacetate isomerase; Region: maiA; TIGR01262 246200002219 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 246200002220 C-terminal domain interface [polypeptide binding]; other site 246200002221 GSH binding site (G-site) [chemical binding]; other site 246200002222 putative dimer interface [polypeptide binding]; other site 246200002223 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 246200002224 dimer interface [polypeptide binding]; other site 246200002225 N-terminal domain interface [polypeptide binding]; other site 246200002226 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 246200002227 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200002228 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 246200002229 Zn binding site [ion binding]; other site 246200002230 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 246200002231 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 246200002232 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200002233 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 246200002234 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 246200002235 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 246200002236 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200002237 dimer interface [polypeptide binding]; other site 246200002238 putative metal binding site [ion binding]; other site 246200002239 fumarylacetoacetase; Region: PLN02856 246200002240 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 246200002241 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 246200002242 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 246200002243 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 246200002244 MarR family; Region: MarR_2; pfam12802 246200002245 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 246200002246 cyclase homology domain; Region: CHD; cd07302 246200002247 nucleotidyl binding site; other site 246200002248 metal binding site [ion binding]; metal-binding site 246200002249 dimer interface [polypeptide binding]; other site 246200002250 ATPase MipZ; Region: MipZ; pfam09140 246200002251 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 246200002252 P-loop; other site 246200002253 Magnesium ion binding site [ion binding]; other site 246200002254 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 246200002255 Magnesium ion binding site [ion binding]; other site 246200002256 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 246200002257 GTPase Era; Reviewed; Region: era; PRK00089 246200002258 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 246200002259 G1 box; other site 246200002260 GTP/Mg2+ binding site [chemical binding]; other site 246200002261 Switch I region; other site 246200002262 G2 box; other site 246200002263 Switch II region; other site 246200002264 G3 box; other site 246200002265 G4 box; other site 246200002266 G5 box; other site 246200002267 KH domain; Region: KH_2; pfam07650 246200002268 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 246200002269 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 246200002270 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 246200002271 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200002272 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200002273 active site 246200002274 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200002275 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 246200002276 Walker A/P-loop; other site 246200002277 ATP binding site [chemical binding]; other site 246200002278 Q-loop/lid; other site 246200002279 ABC transporter signature motif; other site 246200002280 Walker B; other site 246200002281 D-loop; other site 246200002282 H-loop/switch region; other site 246200002283 TOBE domain; Region: TOBE; cl01440 246200002284 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 246200002285 dimer interface [polypeptide binding]; other site 246200002286 conserved gate region; other site 246200002287 putative PBP binding loops; other site 246200002288 ABC-ATPase subunit interface; other site 246200002289 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 246200002290 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 246200002291 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 246200002292 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 246200002293 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 246200002294 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 246200002295 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 246200002296 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200002297 Walker A/P-loop; other site 246200002298 ATP binding site [chemical binding]; other site 246200002299 Q-loop/lid; other site 246200002300 ABC transporter signature motif; other site 246200002301 Walker B; other site 246200002302 D-loop; other site 246200002303 H-loop/switch region; other site 246200002304 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 246200002305 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 246200002306 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200002307 Walker A/P-loop; other site 246200002308 ATP binding site [chemical binding]; other site 246200002309 Q-loop/lid; other site 246200002310 ABC transporter signature motif; other site 246200002311 Walker B; other site 246200002312 D-loop; other site 246200002313 H-loop/switch region; other site 246200002314 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 246200002315 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 246200002316 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 246200002317 dimer interface [polypeptide binding]; other site 246200002318 conserved gate region; other site 246200002319 putative PBP binding loops; other site 246200002320 ABC-ATPase subunit interface; other site 246200002321 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200002322 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 246200002323 dimer interface [polypeptide binding]; other site 246200002324 conserved gate region; other site 246200002325 putative PBP binding loops; other site 246200002326 ABC-ATPase subunit interface; other site 246200002327 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 246200002328 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 246200002329 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 246200002330 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 246200002331 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 246200002332 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 246200002333 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 246200002334 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 246200002335 active site 246200002336 substrate-binding site [chemical binding]; other site 246200002337 metal-binding site [ion binding] 246200002338 ATP binding site [chemical binding]; other site 246200002339 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 246200002340 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 246200002341 active site 246200002342 phosphorylation site [posttranslational modification] 246200002343 intermolecular recognition site; other site 246200002344 dimerization interface [polypeptide binding]; other site 246200002345 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 246200002346 DNA binding site [nucleotide binding] 246200002347 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 246200002348 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 246200002349 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 246200002350 dimer interface [polypeptide binding]; other site 246200002351 phosphorylation site [posttranslational modification] 246200002352 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 246200002353 ATP binding site [chemical binding]; other site 246200002354 Mg2+ binding site [ion binding]; other site 246200002355 G-X-G motif; other site 246200002356 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 246200002357 Hpr binding site; other site 246200002358 active site 246200002359 homohexamer subunit interaction site [polypeptide binding]; other site 246200002360 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 246200002361 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 246200002362 active pocket/dimerization site; other site 246200002363 active site 246200002364 phosphorylation site [posttranslational modification] 246200002365 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 246200002366 dimerization domain swap beta strand [polypeptide binding]; other site 246200002367 regulatory protein interface [polypeptide binding]; other site 246200002368 active site 246200002369 regulatory phosphorylation site [posttranslational modification]; other site 246200002370 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 246200002371 putative acyl-acceptor binding pocket; other site 246200002372 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 246200002373 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 246200002374 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200002375 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 246200002376 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 246200002377 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 246200002378 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 246200002379 Ligand binding site [chemical binding]; other site 246200002380 Electron transfer flavoprotein domain; Region: ETF; pfam01012 246200002381 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 246200002382 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200002383 active site 246200002384 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 246200002385 short chain dehydrogenase; Provisional; Region: PRK05993 246200002386 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 246200002387 NADP binding site [chemical binding]; other site 246200002388 active site 246200002389 steroid binding site; other site 246200002390 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 246200002391 Bacterial SH3 domain homologues; Region: SH3b; smart00287 246200002392 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 246200002393 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 246200002394 CAP-like domain; other site 246200002395 active site 246200002396 primary dimer interface [polypeptide binding]; other site 246200002397 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 246200002398 elongation factor Tu; Reviewed; Region: PRK00049 246200002399 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 246200002400 G1 box; other site 246200002401 GEF interaction site [polypeptide binding]; other site 246200002402 GTP/Mg2+ binding site [chemical binding]; other site 246200002403 Switch I region; other site 246200002404 G2 box; other site 246200002405 G3 box; other site 246200002406 Switch II region; other site 246200002407 G4 box; other site 246200002408 G5 box; other site 246200002409 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 246200002410 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 246200002411 Antibiotic Binding Site [chemical binding]; other site 246200002412 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 246200002413 putative acyl-acceptor binding pocket; other site 246200002414 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 246200002415 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 246200002416 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 246200002417 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 246200002418 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl17341 246200002419 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 246200002420 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 246200002421 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 246200002422 catalytic site [active] 246200002423 PaaX-like protein; Region: PaaX; pfam07848 246200002424 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 246200002425 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 246200002426 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 246200002427 substrate binding site [chemical binding]; other site 246200002428 dimer interface [polypeptide binding]; other site 246200002429 NADP binding site [chemical binding]; other site 246200002430 catalytic residues [active] 246200002431 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 246200002432 active site 2 [active] 246200002433 active site 1 [active] 246200002434 DctM-like transporters; Region: DctM; pfam06808 246200002435 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 246200002436 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 246200002437 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200002438 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 246200002439 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 246200002440 substrate binding site [chemical binding]; other site 246200002441 oxyanion hole (OAH) forming residues; other site 246200002442 trimer interface [polypeptide binding]; other site 246200002443 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 246200002444 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200002445 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200002446 enoyl-CoA hydratase; Provisional; Region: PRK08140 246200002447 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 246200002448 substrate binding site [chemical binding]; other site 246200002449 oxyanion hole (OAH) forming residues; other site 246200002450 trimer interface [polypeptide binding]; other site 246200002451 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 246200002452 CoenzymeA binding site [chemical binding]; other site 246200002453 subunit interaction site [polypeptide binding]; other site 246200002454 PHB binding site; other site 246200002455 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 246200002456 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 246200002457 active site 246200002458 AMP binding site [chemical binding]; other site 246200002459 homodimer interface [polypeptide binding]; other site 246200002460 acyl-activating enzyme (AAE) consensus motif; other site 246200002461 CoA binding site [chemical binding]; other site 246200002462 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200002463 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200002464 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 246200002465 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 246200002466 active site 246200002467 catalytic residues [active] 246200002468 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 246200002469 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 246200002470 active site 246200002471 Uncharacterized bacterial family of heme peroxidases; Region: An_peroxidase_bacterial_1; cd09819 246200002472 putative heme binding site [chemical binding]; other site 246200002473 putative substrate binding site [chemical binding]; other site 246200002474 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 246200002475 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 246200002476 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 246200002477 cyclase homology domain; Region: CHD; cd07302 246200002478 nucleotidyl binding site; other site 246200002479 metal binding site [ion binding]; metal-binding site 246200002480 dimer interface [polypeptide binding]; other site 246200002481 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 246200002482 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 246200002483 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 246200002484 FAD binding pocket [chemical binding]; other site 246200002485 FAD binding motif [chemical binding]; other site 246200002486 phosphate binding motif [ion binding]; other site 246200002487 beta-alpha-beta structure motif; other site 246200002488 NAD(p) ribose binding residues [chemical binding]; other site 246200002489 NAD binding pocket [chemical binding]; other site 246200002490 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 246200002491 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 246200002492 catalytic loop [active] 246200002493 iron binding site [ion binding]; other site 246200002494 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 246200002495 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 246200002496 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 246200002497 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 246200002498 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 246200002499 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 246200002500 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 246200002501 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 246200002502 dimer interface [polypeptide binding]; other site 246200002503 active site 246200002504 Uncharacterized conserved protein [Function unknown]; Region: COG2128 246200002505 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 246200002506 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 246200002507 Transcriptional regulators [Transcription]; Region: GntR; COG1802 246200002508 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200002509 DNA-binding site [nucleotide binding]; DNA binding site 246200002510 FCD domain; Region: FCD; pfam07729 246200002511 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 246200002512 catalytic triad [active] 246200002513 Cytochrome P450; Region: p450; cl12078 246200002514 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 246200002515 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 246200002516 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 246200002517 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 246200002518 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 246200002519 catalytic loop [active] 246200002520 iron binding site [ion binding]; other site 246200002521 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 246200002522 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 246200002523 Transcriptional regulator [Transcription]; Region: IclR; COG1414 246200002524 Bacterial transcriptional regulator; Region: IclR; pfam01614 246200002525 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 246200002526 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 246200002527 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 246200002528 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 246200002529 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 246200002530 substrate binding site [chemical binding]; other site 246200002531 oxyanion hole (OAH) forming residues; other site 246200002532 trimer interface [polypeptide binding]; other site 246200002533 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 246200002534 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200002535 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 246200002536 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 246200002537 dimer interface [polypeptide binding]; other site 246200002538 active site 246200002539 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 246200002540 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 246200002541 FAD binding site [chemical binding]; other site 246200002542 substrate binding site [chemical binding]; other site 246200002543 catalytic base [active] 246200002544 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 246200002545 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 246200002546 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 246200002547 active site 246200002548 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 246200002549 CoenzymeA binding site [chemical binding]; other site 246200002550 subunit interaction site [polypeptide binding]; other site 246200002551 PHB binding site; other site 246200002552 enoyl-CoA hydratase; Provisional; Region: PRK07511 246200002553 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 246200002554 substrate binding site [chemical binding]; other site 246200002555 oxyanion hole (OAH) forming residues; other site 246200002556 trimer interface [polypeptide binding]; other site 246200002557 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 246200002558 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 246200002559 acyl-activating enzyme (AAE) consensus motif; other site 246200002560 AMP binding site [chemical binding]; other site 246200002561 active site 246200002562 CoA binding site [chemical binding]; other site 246200002563 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 246200002564 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 246200002565 substrate binding site [chemical binding]; other site 246200002566 hexamer interface [polypeptide binding]; other site 246200002567 metal binding site [ion binding]; metal-binding site 246200002568 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 246200002569 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 246200002570 Walker A/P-loop; other site 246200002571 ATP binding site [chemical binding]; other site 246200002572 Q-loop/lid; other site 246200002573 ABC transporter signature motif; other site 246200002574 Walker B; other site 246200002575 D-loop; other site 246200002576 H-loop/switch region; other site 246200002577 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 246200002578 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 246200002579 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 246200002580 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 246200002581 dimer interface [polypeptide binding]; other site 246200002582 conserved gate region; other site 246200002583 putative PBP binding loops; other site 246200002584 ABC-ATPase subunit interface; other site 246200002585 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 246200002586 dimer interface [polypeptide binding]; other site 246200002587 conserved gate region; other site 246200002588 ABC-ATPase subunit interface; other site 246200002589 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 246200002590 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 246200002591 trimer interface [polypeptide binding]; other site 246200002592 active site 246200002593 substrate binding site [chemical binding]; other site 246200002594 CoA binding site [chemical binding]; other site 246200002595 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 246200002596 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 246200002597 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 246200002598 active site 246200002599 phosphoglycolate phosphatase; Provisional; Region: PRK13222 246200002600 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 246200002601 motif II; other site 246200002602 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 246200002603 Hemin uptake protein hemP; Region: hemP; pfam10636 246200002604 hypothetical protein; Provisional; Region: PRK06148 246200002605 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 246200002606 active site 246200002607 ATP binding site [chemical binding]; other site 246200002608 substrate binding site [chemical binding]; other site 246200002609 Peptidase family M23; Region: Peptidase_M23; pfam01551 246200002610 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 246200002611 inhibitor-cofactor binding pocket; inhibition site 246200002612 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200002613 catalytic residue [active] 246200002614 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 246200002615 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 246200002616 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 246200002617 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 246200002618 DNA binding residues [nucleotide binding] 246200002619 dimer interface [polypeptide binding]; other site 246200002620 copper binding site [ion binding]; other site 246200002621 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 246200002622 metal-binding site [ion binding] 246200002623 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 246200002624 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 246200002625 metal-binding site [ion binding] 246200002626 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 246200002627 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 246200002628 motif II; other site 246200002629 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 246200002630 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200002631 NAD(P) binding site [chemical binding]; other site 246200002632 active site 246200002633 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 246200002634 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 246200002635 putative NAD(P) binding site [chemical binding]; other site 246200002636 active site 246200002637 putative substrate binding site [chemical binding]; other site 246200002638 bile acid transporter; Region: bass; TIGR00841 246200002639 Sodium Bile acid symporter family; Region: SBF; cl17470 246200002640 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 246200002641 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200002642 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200002643 Sulfatase; Region: Sulfatase; cl17466 246200002644 choline-sulfatase; Region: chol_sulfatase; TIGR03417 246200002645 Sulfatase; Region: Sulfatase; cl17466 246200002646 4-coumarate--CoA ligase; Region: PLN02246 246200002647 4-Coumarate-CoA Ligase (4CL); Region: 4CL; cd05904 246200002648 acyl-activating enzyme (AAE) consensus motif; other site 246200002649 active site 246200002650 putative CoA binding site [chemical binding]; other site 246200002651 AMP binding site [chemical binding]; other site 246200002652 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 246200002653 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 246200002654 RNA binding site [nucleotide binding]; other site 246200002655 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 246200002656 RNA binding site [nucleotide binding]; other site 246200002657 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 246200002658 RNA binding site [nucleotide binding]; other site 246200002659 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 246200002660 RNA binding site [nucleotide binding]; other site 246200002661 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...; Region: S1_RPS1_repeat_ec5; cd05690 246200002662 RNA binding site [nucleotide binding]; other site 246200002663 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 246200002664 RNA binding site [nucleotide binding]; other site 246200002665 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 246200002666 nudix motif; other site 246200002667 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 246200002668 IHF dimer interface [polypeptide binding]; other site 246200002669 IHF - DNA interface [nucleotide binding]; other site 246200002670 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 246200002671 active site 246200002672 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 246200002673 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 246200002674 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200002675 catalytic residue [active] 246200002676 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 246200002677 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 246200002678 Beta-lactamase; Region: Beta-lactamase; pfam00144 246200002679 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 246200002680 putative active site [active] 246200002681 catalytic residue [active] 246200002682 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 246200002683 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 246200002684 5S rRNA interface [nucleotide binding]; other site 246200002685 CTC domain interface [polypeptide binding]; other site 246200002686 L16 interface [polypeptide binding]; other site 246200002687 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 246200002688 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 246200002689 active site 246200002690 substrate binding site [chemical binding]; other site 246200002691 FMN binding site [chemical binding]; other site 246200002692 putative catalytic residues [active] 246200002693 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 246200002694 putative active site [active] 246200002695 putative catalytic site [active] 246200002696 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 246200002697 substrate binding site [chemical binding]; other site 246200002698 active site 246200002699 catalytic residues [active] 246200002700 heterodimer interface [polypeptide binding]; other site 246200002701 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 246200002702 GTP-binding protein YchF; Reviewed; Region: PRK09601 246200002703 YchF GTPase; Region: YchF; cd01900 246200002704 G1 box; other site 246200002705 GTP/Mg2+ binding site [chemical binding]; other site 246200002706 Switch I region; other site 246200002707 G2 box; other site 246200002708 Switch II region; other site 246200002709 G3 box; other site 246200002710 G4 box; other site 246200002711 G5 box; other site 246200002712 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 246200002713 MAPEG family; Region: MAPEG; pfam01124 246200002714 Amidohydrolase; Region: Amidohydro_5; pfam13594 246200002715 Amidohydrolase; Region: Amidohydro_4; pfam13147 246200002716 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 246200002717 active site 246200002718 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 246200002719 CoA-transferase family III; Region: CoA_transf_3; pfam02515 246200002720 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 246200002721 MarR family; Region: MarR; pfam01047 246200002722 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200002723 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 246200002724 Walker A/P-loop; other site 246200002725 ATP binding site [chemical binding]; other site 246200002726 Q-loop/lid; other site 246200002727 ABC transporter signature motif; other site 246200002728 Walker B; other site 246200002729 D-loop; other site 246200002730 H-loop/switch region; other site 246200002731 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200002732 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 246200002733 Walker A/P-loop; other site 246200002734 ATP binding site [chemical binding]; other site 246200002735 Q-loop/lid; other site 246200002736 ABC transporter signature motif; other site 246200002737 Walker B; other site 246200002738 D-loop; other site 246200002739 H-loop/switch region; other site 246200002740 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 246200002741 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 246200002742 TM-ABC transporter signature motif; other site 246200002743 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 246200002744 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 246200002745 TM-ABC transporter signature motif; other site 246200002746 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 246200002747 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 246200002748 putative ligand binding site [chemical binding]; other site 246200002749 Amino acid synthesis; Region: AA_synth; pfam06684 246200002750 Amino acid synthesis; Region: AA_synth; pfam06684 246200002751 hypothetical protein; Provisional; Region: PRK04334 246200002752 selenium-dependent molybdenum hydroxylase 1; Region: Se_dep_Molyb_1; TIGR03311 246200002753 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 246200002754 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 246200002755 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 246200002756 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 246200002757 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 246200002758 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 246200002759 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200002760 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200002761 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 246200002762 dimerization interface [polypeptide binding]; other site 246200002763 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 246200002764 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 246200002765 putative dimer interface [polypeptide binding]; other site 246200002766 [2Fe-2S] cluster binding site [ion binding]; other site 246200002767 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 246200002768 SLBB domain; Region: SLBB; pfam10531 246200002769 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 246200002770 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 246200002771 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 246200002772 catalytic loop [active] 246200002773 iron binding site [ion binding]; other site 246200002774 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 246200002775 4Fe-4S binding domain; Region: Fer4; pfam00037 246200002776 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 246200002777 [4Fe-4S] binding site [ion binding]; other site 246200002778 molybdopterin cofactor binding site; other site 246200002779 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 246200002780 molybdopterin cofactor binding site; other site 246200002781 Putative cyclase; Region: Cyclase; pfam04199 246200002782 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 246200002783 active site 246200002784 Bacterial sugar transferase; Region: Bac_transf; pfam02397 246200002785 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 246200002786 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 246200002787 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 246200002788 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 246200002789 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 246200002790 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 246200002791 putative ADP-binding pocket [chemical binding]; other site 246200002792 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 246200002793 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 246200002794 active site 246200002795 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 246200002796 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 246200002797 putative formyltransferase; Provisional; Region: PRK06988 246200002798 putative active site [active] 246200002799 putative substrate binding site [chemical binding]; other site 246200002800 putative cosubstrate binding site; other site 246200002801 catalytic site [active] 246200002802 C-terminal subdomain of the Formyltransferase-like domain found in OzmH-like proteins; Region: FMT_C_OzmH_like; cd08700 246200002803 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 246200002804 acyl-activating enzyme (AAE) consensus motif; other site 246200002805 natural product biosynthesis luciferase-like monooxygenase domain; Region: seco_metab_LLM; TIGR04020 246200002806 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 246200002807 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 246200002808 AMP binding site [chemical binding]; other site 246200002809 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 246200002810 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 246200002811 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 246200002812 Probable Catalytic site; other site 246200002813 metal-binding site 246200002814 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 246200002815 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 246200002816 active site 246200002817 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 246200002818 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 246200002819 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 246200002820 putative NADP binding site [chemical binding]; other site 246200002821 KR domain; Region: KR; pfam08659 246200002822 active site 246200002823 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 246200002824 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 246200002825 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 246200002826 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 246200002827 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 246200002828 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 246200002829 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 246200002830 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 246200002831 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200002832 NAD(P) binding site [chemical binding]; other site 246200002833 active site 246200002834 active site 246200002835 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 246200002836 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 246200002837 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 246200002838 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 246200002839 N- and C-terminal domain interface [polypeptide binding]; other site 246200002840 D-xylulose kinase; Region: XylB; TIGR01312 246200002841 active site 246200002842 MgATP binding site [chemical binding]; other site 246200002843 catalytic site [active] 246200002844 metal binding site [ion binding]; metal-binding site 246200002845 xylulose binding site [chemical binding]; other site 246200002846 homodimer interface [polypeptide binding]; other site 246200002847 xylose isomerase; Provisional; Region: PRK05474 246200002848 xylose isomerase; Region: xylose_isom_A; TIGR02630 246200002849 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 246200002850 active site 246200002851 catalytic residues [active] 246200002852 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 246200002853 Family description; Region: VCBS; pfam13517 246200002854 Family description; Region: VCBS; pfam13517 246200002855 Family description; Region: VCBS; pfam13517 246200002856 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 246200002857 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 246200002858 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 246200002859 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 246200002860 nucleotide binding site [chemical binding]; other site 246200002861 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 246200002862 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 246200002863 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 246200002864 putative ligand binding site [chemical binding]; other site 246200002865 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 246200002866 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 246200002867 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 246200002868 TM-ABC transporter signature motif; other site 246200002869 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 246200002870 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 246200002871 Walker A/P-loop; other site 246200002872 ATP binding site [chemical binding]; other site 246200002873 Q-loop/lid; other site 246200002874 ABC transporter signature motif; other site 246200002875 Walker B; other site 246200002876 D-loop; other site 246200002877 H-loop/switch region; other site 246200002878 Glucokinase; Region: Glucokinase; cl17310 246200002879 glucokinase, proteobacterial type; Region: glk; TIGR00749 246200002880 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 246200002881 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 246200002882 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 246200002883 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 246200002884 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 246200002885 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 246200002886 Family of unknown function (DUF490); Region: DUF490; pfam04357 246200002887 Family of unknown function (DUF490); Region: DUF490; pfam04357 246200002888 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 246200002889 Surface antigen; Region: Bac_surface_Ag; pfam01103 246200002890 Predicted membrane protein [Function unknown]; Region: COG3748 246200002891 Protein of unknown function (DUF989); Region: DUF989; pfam06181 246200002892 Cytochrome c; Region: Cytochrom_C; pfam00034 246200002893 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200002894 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200002895 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 246200002896 dimerization interface [polypeptide binding]; other site 246200002897 putative effector binding pocket; other site 246200002898 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 246200002899 active site 246200002900 homotetramer interface [polypeptide binding]; other site 246200002901 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 246200002902 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 246200002903 active site 246200002904 catalytic site [active] 246200002905 tetramer interface [polypeptide binding]; other site 246200002906 OHCU decarboxylase; Region: UHCUDC; TIGR03164 246200002907 ureidoglycolate hydrolase; Provisional; Region: PRK03606 246200002908 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 246200002909 xanthine permease; Region: pbuX; TIGR03173 246200002910 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 246200002911 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 246200002912 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 246200002913 hypothetical protein; Provisional; Region: PRK11171 246200002914 Cupin domain; Region: Cupin_2; pfam07883 246200002915 Cupin domain; Region: Cupin_2; pfam07883 246200002916 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 246200002917 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 246200002918 lipoyl attachment site [posttranslational modification]; other site 246200002919 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200002920 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200002921 active site 246200002922 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 246200002923 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 246200002924 active site 2 [active] 246200002925 active site 1 [active] 246200002926 Protein of unknown function (DUF1007); Region: DUF1007; pfam06226 246200002927 High-affinity nickel-transport protein; Region: NicO; cl00964 246200002928 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 246200002929 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 246200002930 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 246200002931 oligomerisation interface [polypeptide binding]; other site 246200002932 mobile loop; other site 246200002933 roof hairpin; other site 246200002934 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 246200002935 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 246200002936 ring oligomerisation interface [polypeptide binding]; other site 246200002937 ATP/Mg binding site [chemical binding]; other site 246200002938 stacking interactions; other site 246200002939 hinge regions; other site 246200002940 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 246200002941 Coenzyme A binding pocket [chemical binding]; other site 246200002942 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200002943 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 246200002944 nucleophilic elbow; other site 246200002945 catalytic triad; other site 246200002946 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 246200002947 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 246200002948 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 246200002949 active site 246200002950 Phosphoribosylaminoimidazole carboxylase (NCAIR synthetase) [Nucleotide transport and metabolism]; Region: PurK; COG0026 246200002951 ATP-grasp domain; Region: ATP-grasp; pfam02222 246200002952 AIR carboxylase; Region: AIRC; pfam00731 246200002953 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 246200002954 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 246200002955 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 246200002956 putative dimer interface [polypeptide binding]; other site 246200002957 Protein of unknown function (DUF1150); Region: DUF1150; pfam06620 246200002958 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 246200002959 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 246200002960 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated; Region: PRK05537 246200002961 ATP-sulfurylase; Region: ATPS; cd00517 246200002962 active site 246200002963 HXXH motif; other site 246200002964 flexible loop; other site 246200002965 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 246200002966 ligand-binding site [chemical binding]; other site 246200002967 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 246200002968 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 246200002969 catalytic loop [active] 246200002970 iron binding site [ion binding]; other site 246200002971 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 246200002972 cyclase homology domain; Region: CHD; cd07302 246200002973 nucleotidyl binding site; other site 246200002974 metal binding site [ion binding]; metal-binding site 246200002975 dimer interface [polypeptide binding]; other site 246200002976 RES domain; Region: RES; smart00953 246200002977 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 246200002978 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 246200002979 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 246200002980 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200002981 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 246200002982 putative DNA binding site [nucleotide binding]; other site 246200002983 putative Zn2+ binding site [ion binding]; other site 246200002984 AsnC family; Region: AsnC_trans_reg; pfam01037 246200002985 Hint domain; Region: Hint_2; pfam13403 246200002986 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 246200002987 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 246200002988 Uncharacterized conserved protein [Function unknown]; Region: COG1565 246200002989 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 246200002990 Membrane fusogenic activity; Region: BMFP; pfam04380 246200002991 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 246200002992 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 246200002993 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 246200002994 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 246200002995 dimer interface [polypeptide binding]; other site 246200002996 putative tRNA-binding site [nucleotide binding]; other site 246200002997 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 246200002998 dimerization interface [polypeptide binding]; other site 246200002999 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 246200003000 ligand binding site [chemical binding]; other site 246200003001 NADP binding site [chemical binding]; other site 246200003002 catalytic site [active] 246200003003 thymidine kinase; Provisional; Region: PRK04296 246200003004 Uncharacterized protein conserved in bacteria (DUF2332); Region: DUF2332; pfam10094 246200003005 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 246200003006 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200003007 active site 246200003008 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 246200003009 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 246200003010 dimer interface [polypeptide binding]; other site 246200003011 active site 246200003012 CoA binding pocket [chemical binding]; other site 246200003013 MarR family; Region: MarR; pfam01047 246200003014 MarR family; Region: MarR_2; cl17246 246200003015 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 246200003016 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 246200003017 HlyD family secretion protein; Region: HlyD_3; pfam13437 246200003018 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 246200003019 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 246200003020 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200003021 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 246200003022 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 246200003023 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 246200003024 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 246200003025 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 246200003026 ATP-grasp domain; Region: ATP-grasp_4; cl17255 246200003027 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 246200003028 IMP binding site; other site 246200003029 dimer interface [polypeptide binding]; other site 246200003030 partial ornithine binding site; other site 246200003031 aminodeoxychorismate synthase; Provisional; Region: PRK07508 246200003032 chorismate binding enzyme; Region: Chorismate_bind; cl10555 246200003033 hypothetical protein; Provisional; Region: PRK07546 246200003034 homodimer interface [polypeptide binding]; other site 246200003035 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 246200003036 substrate-cofactor binding pocket; other site 246200003037 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200003038 catalytic residue [active] 246200003039 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 246200003040 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 246200003041 dimer interface [polypeptide binding]; other site 246200003042 anticodon binding site; other site 246200003043 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 246200003044 motif 1; other site 246200003045 dimer interface [polypeptide binding]; other site 246200003046 active site 246200003047 motif 2; other site 246200003048 GAD domain; Region: GAD; pfam02938 246200003049 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 246200003050 active site 246200003051 motif 3; other site 246200003052 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 246200003053 MT-A70; Region: MT-A70; cl01947 246200003054 Response regulator receiver domain; Region: Response_reg; pfam00072 246200003055 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 246200003056 active site 246200003057 phosphorylation site [posttranslational modification] 246200003058 intermolecular recognition site; other site 246200003059 dimerization interface [polypeptide binding]; other site 246200003060 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200003061 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 246200003062 dimer interface [polypeptide binding]; other site 246200003063 substrate binding site [chemical binding]; other site 246200003064 metal binding site [ion binding]; metal-binding site 246200003065 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 246200003066 Etoposide-induced protein 2.4 (EI24); Region: EI24; cl01126 246200003067 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 246200003068 putative FMN binding site [chemical binding]; other site 246200003069 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 246200003070 Peptidase family M48; Region: Peptidase_M48; cl12018 246200003071 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 246200003072 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 246200003073 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 246200003074 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 246200003075 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 246200003076 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 246200003077 FeS/SAM binding site; other site 246200003078 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 246200003079 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 246200003080 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 246200003081 active site 246200003082 substrate binding site [chemical binding]; other site 246200003083 metal binding site [ion binding]; metal-binding site 246200003084 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 246200003085 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 246200003086 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 246200003087 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 246200003088 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200003089 Walker A/P-loop; other site 246200003090 ATP binding site [chemical binding]; other site 246200003091 Q-loop/lid; other site 246200003092 ABC transporter signature motif; other site 246200003093 Walker B; other site 246200003094 D-loop; other site 246200003095 H-loop/switch region; other site 246200003096 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 246200003097 ligand binding site [chemical binding]; other site 246200003098 active site 246200003099 putative S-transferase; Provisional; Region: PRK11752 246200003100 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 246200003101 C-terminal domain interface [polypeptide binding]; other site 246200003102 GSH binding site (G-site) [chemical binding]; other site 246200003103 dimer interface [polypeptide binding]; other site 246200003104 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 246200003105 dimer interface [polypeptide binding]; other site 246200003106 N-terminal domain interface [polypeptide binding]; other site 246200003107 active site 246200003108 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 246200003109 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 246200003110 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 246200003111 active site 246200003112 GcrA cell cycle regulator; Region: GcrA; cl11564 246200003113 ABC-2 type transporter; Region: ABC2_membrane; cl17235 246200003114 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 246200003115 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200003116 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200003117 EamA-like transporter family; Region: EamA; pfam00892 246200003118 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 246200003119 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 246200003120 DNA binding residues [nucleotide binding] 246200003121 Putative zinc ribbon domain; Region: Zn_ribbon_2; pfam12674 246200003122 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 246200003123 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 246200003124 inhibitor-cofactor binding pocket; inhibition site 246200003125 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200003126 catalytic residue [active] 246200003127 ornithine carbamoyltransferase; Provisional; Region: PRK00779 246200003128 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 246200003129 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 246200003130 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 246200003131 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 246200003132 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 246200003133 Uncharacterized conserved protein [Function unknown]; Region: COG3603 246200003134 Family description; Region: ACT_7; pfam13840 246200003135 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 246200003136 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 246200003137 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 246200003138 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 246200003139 Phosphate transporter family; Region: PHO4; pfam01384 246200003140 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 246200003141 nudix motif; other site 246200003142 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 246200003143 amphipathic channel; other site 246200003144 Asn-Pro-Ala signature motifs; other site 246200003145 choline dehydrogenase; Validated; Region: PRK02106 246200003146 lycopene cyclase; Region: lycopene_cycl; TIGR01789 246200003147 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 246200003148 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 246200003149 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 246200003150 ATP binding site [chemical binding]; other site 246200003151 putative Mg++ binding site [ion binding]; other site 246200003152 nucleotide binding region [chemical binding]; other site 246200003153 helicase superfamily c-terminal domain; Region: HELICc; smart00490 246200003154 ATP-binding site [chemical binding]; other site 246200003155 Helicase associated domain (HA2); Region: HA2; pfam04408 246200003156 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 246200003157 membrane ATPase/protein kinase; Provisional; Region: PRK09435 246200003158 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 246200003159 Walker A; other site 246200003160 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 246200003161 Protein of unknown function (DUF461); Region: DUF461; pfam04314 246200003162 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 246200003163 NAD-dependent deacetylase; Provisional; Region: PRK00481 246200003164 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 246200003165 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 246200003166 Low molecular weight phosphatase family; Region: LMWPc; cd00115 246200003167 active site 246200003168 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200003169 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200003170 LysR substrate binding domain; Region: LysR_substrate; pfam03466 246200003171 dimerization interface [polypeptide binding]; other site 246200003172 histidinol dehydrogenase; Region: hisD; TIGR00069 246200003173 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 246200003174 dimerization interface [polypeptide binding]; other site 246200003175 NAD binding site [chemical binding]; other site 246200003176 product binding site; other site 246200003177 substrate binding site [chemical binding]; other site 246200003178 zinc binding site [ion binding]; other site 246200003179 catalytic residues [active] 246200003180 GTP-binding protein LepA; Provisional; Region: PRK05433 246200003181 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 246200003182 G1 box; other site 246200003183 putative GEF interaction site [polypeptide binding]; other site 246200003184 GTP/Mg2+ binding site [chemical binding]; other site 246200003185 Switch I region; other site 246200003186 G2 box; other site 246200003187 G3 box; other site 246200003188 Switch II region; other site 246200003189 G4 box; other site 246200003190 G5 box; other site 246200003191 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 246200003192 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 246200003193 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 246200003194 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 246200003195 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 246200003196 ABC-ATPase subunit interface; other site 246200003197 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 246200003198 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 246200003199 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 246200003200 metal binding site 2 [ion binding]; metal-binding site 246200003201 putative DNA binding helix; other site 246200003202 metal binding site 1 [ion binding]; metal-binding site 246200003203 dimer interface [polypeptide binding]; other site 246200003204 structural Zn2+ binding site [ion binding]; other site 246200003205 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 246200003206 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 246200003207 metal binding site [ion binding]; metal-binding site 246200003208 Sulphur transport; Region: Sulf_transp; pfam04143 246200003209 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 246200003210 dimerization interface [polypeptide binding]; other site 246200003211 putative DNA binding site [nucleotide binding]; other site 246200003212 putative Zn2+ binding site [ion binding]; other site 246200003213 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 246200003214 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 246200003215 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 246200003216 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 246200003217 catalytic residues [active] 246200003218 Cytochrome c; Region: Cytochrom_C; pfam00034 246200003219 sulfur oxidation protein SoxY; Provisional; Region: PRK07474 246200003220 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 246200003221 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 246200003222 Cytochrome c [Energy production and conversion]; Region: COG3258 246200003223 Cytochrome c [Energy production and conversion]; Region: COG3258 246200003224 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 246200003225 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 246200003226 active site 246200003227 metal binding site [ion binding]; metal-binding site 246200003228 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 246200003229 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 246200003230 Moco binding site; other site 246200003231 metal coordination site [ion binding]; other site 246200003232 Cytochrome c; Region: Cytochrom_C; pfam00034 246200003233 Cytochrome c2 [Energy production and conversion]; Region: COG3474 246200003234 Cytochrome c2 [Energy production and conversion]; Region: COG3474 246200003235 Cytochrome c; Region: Cytochrom_C; cl11414 246200003236 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 246200003237 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 246200003238 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200003239 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 246200003240 conserved cys residue [active] 246200003241 Homeodomain-like domain; Region: HTH_23; pfam13384 246200003242 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200003243 Clp protease; Region: CLP_protease; pfam00574 246200003244 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 246200003245 oligomer interface [polypeptide binding]; other site 246200003246 active site residues [active] 246200003247 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 246200003248 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 246200003249 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 246200003250 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 246200003251 Walker A motif; other site 246200003252 ATP binding site [chemical binding]; other site 246200003253 Walker B motif; other site 246200003254 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 246200003255 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 246200003256 homotrimer interaction site [polypeptide binding]; other site 246200003257 putative active site [active] 246200003258 NADH dehydrogenase; Validated; Region: PRK08183 246200003259 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 246200003260 mce related protein; Region: MCE; pfam02470 246200003261 Uncharacterized protein conserved in bacteria (DUF2155); Region: DUF2155; pfam09923 246200003262 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 246200003263 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 246200003264 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 246200003265 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 246200003266 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 246200003267 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 246200003268 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 246200003269 carboxyltransferase (CT) interaction site; other site 246200003270 biotinylation site [posttranslational modification]; other site 246200003271 PAS domain; Region: PAS_9; pfam13426 246200003272 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 246200003273 putative active site [active] 246200003274 heme pocket [chemical binding]; other site 246200003275 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200003276 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 246200003277 DNA binding residues [nucleotide binding] 246200003278 dimerization interface [polypeptide binding]; other site 246200003279 acetyl-CoA acetyltransferase; Provisional; Region: PRK07516 246200003280 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 246200003281 active site 246200003282 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 246200003283 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 246200003284 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 246200003285 acyl-activating enzyme (AAE) consensus motif; other site 246200003286 acyl-activating enzyme (AAE) consensus motif; other site 246200003287 putative AMP binding site [chemical binding]; other site 246200003288 putative active site [active] 246200003289 putative CoA binding site [chemical binding]; other site 246200003290 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 246200003291 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200003292 NAD(P) binding site [chemical binding]; other site 246200003293 active site 246200003294 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 246200003295 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200003296 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 246200003297 Walker A/P-loop; other site 246200003298 ATP binding site [chemical binding]; other site 246200003299 Q-loop/lid; other site 246200003300 ABC transporter signature motif; other site 246200003301 Walker B; other site 246200003302 D-loop; other site 246200003303 H-loop/switch region; other site 246200003304 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200003305 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 246200003306 Walker A/P-loop; other site 246200003307 ATP binding site [chemical binding]; other site 246200003308 Q-loop/lid; other site 246200003309 ABC transporter signature motif; other site 246200003310 Walker B; other site 246200003311 D-loop; other site 246200003312 H-loop/switch region; other site 246200003313 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 246200003314 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 246200003315 TM-ABC transporter signature motif; other site 246200003316 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 246200003317 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 246200003318 TM-ABC transporter signature motif; other site 246200003319 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 246200003320 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 246200003321 putative ligand binding site [chemical binding]; other site 246200003322 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 246200003323 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 246200003324 non-specific DNA binding site [nucleotide binding]; other site 246200003325 salt bridge; other site 246200003326 sequence-specific DNA binding site [nucleotide binding]; other site 246200003327 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 246200003328 Response regulator receiver domain; Region: Response_reg; pfam00072 246200003329 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 246200003330 active site 246200003331 phosphorylation site [posttranslational modification] 246200003332 intermolecular recognition site; other site 246200003333 dimerization interface [polypeptide binding]; other site 246200003334 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 246200003335 Na binding site [ion binding]; other site 246200003336 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 246200003337 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 246200003338 dimer interface [polypeptide binding]; other site 246200003339 phosphorylation site [posttranslational modification] 246200003340 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 246200003341 ATP binding site [chemical binding]; other site 246200003342 Mg2+ binding site [ion binding]; other site 246200003343 G-X-G motif; other site 246200003344 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 246200003345 Putative phosphatase (DUF442); Region: DUF442; cl17385 246200003346 Predicted transporter component [General function prediction only]; Region: COG2391 246200003347 Sulphur transport; Region: Sulf_transp; pfam04143 246200003348 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 246200003349 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 246200003350 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 246200003351 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 246200003352 active site 246200003353 Int/Topo IB signature motif; other site 246200003354 DNA binding site [nucleotide binding] 246200003355 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 246200003356 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 246200003357 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 246200003358 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 246200003359 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 246200003360 putative active site [active] 246200003361 putative NTP binding site [chemical binding]; other site 246200003362 putative nucleic acid binding site [nucleotide binding]; other site 246200003363 Restriction endonuclease NotI; Region: NotI; pfam12183 246200003364 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 246200003365 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 246200003366 cofactor binding site; other site 246200003367 DNA binding site [nucleotide binding] 246200003368 substrate interaction site [chemical binding]; other site 246200003369 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 246200003370 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 246200003371 active site 246200003372 DNA binding site [nucleotide binding] 246200003373 Int/Topo IB signature motif; other site 246200003374 AAA domain; Region: AAA_33; pfam13671 246200003375 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 246200003376 active site 246200003377 Domain of unknown function (DUF1772); Region: DUF1772; pfam08592 246200003378 Domain of unknown function (DUF4345); Region: DUF4345; pfam14248 246200003379 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200003380 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 246200003381 NAD(P) binding site [chemical binding]; other site 246200003382 active site 246200003383 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 246200003384 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 246200003385 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200003386 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 246200003387 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 246200003388 putative acyl-acceptor binding pocket; other site 246200003389 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 246200003390 Catalytic domain of Protein Kinases; Region: PKc; cd00180 246200003391 active site 246200003392 ATP binding site [chemical binding]; other site 246200003393 substrate binding site [chemical binding]; other site 246200003394 activation loop (A-loop); other site 246200003395 ABC-type amino acid transport/signal transduction systems, periplasmic component/domain [Amino acid transport and metabolism / Signal transduction mechanisms]; Region: HisJ; COG0834 246200003396 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 246200003397 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 246200003398 substrate binding pocket [chemical binding]; other site 246200003399 membrane-bound complex binding site; other site 246200003400 hinge residues; other site 246200003401 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 246200003402 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 246200003403 substrate binding pocket [chemical binding]; other site 246200003404 membrane-bound complex binding site; other site 246200003405 hinge residues; other site 246200003406 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 246200003407 phosphopeptide binding site; other site 246200003408 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 246200003409 active site 246200003410 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 246200003411 G1 box; other site 246200003412 GTP/Mg2+ binding site [chemical binding]; other site 246200003413 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 246200003414 G1 box; other site 246200003415 GTP/Mg2+ binding site [chemical binding]; other site 246200003416 G2 box; other site 246200003417 Switch I region; other site 246200003418 G3 box; other site 246200003419 Switch II region; other site 246200003420 G4 box; other site 246200003421 G5 box; other site 246200003422 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 246200003423 G1 box; other site 246200003424 GTP/Mg2+ binding site [chemical binding]; other site 246200003425 G2 box; other site 246200003426 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 246200003427 G3 box; other site 246200003428 Switch II region; other site 246200003429 GTP/Mg2+ binding site [chemical binding]; other site 246200003430 G4 box; other site 246200003431 G5 box; other site 246200003432 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 246200003433 FAD binding domain; Region: FAD_binding_2; pfam00890 246200003434 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 246200003435 catalytic triad [active] 246200003436 hypothetical protein; Validated; Region: PRK00110 246200003437 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 246200003438 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 246200003439 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 246200003440 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 246200003441 TrkA-C domain; Region: TrkA_C; pfam02080 246200003442 TrkA-C domain; Region: TrkA_C; pfam02080 246200003443 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 246200003444 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 246200003445 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 246200003446 putative FMN binding site [chemical binding]; other site 246200003447 putative dimer interface [polypeptide binding]; other site 246200003448 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 246200003449 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200003450 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 246200003451 dimerization interface [polypeptide binding]; other site 246200003452 Lysine efflux permease [General function prediction only]; Region: COG1279 246200003453 EamA-like transporter family; Region: EamA; pfam00892 246200003454 EamA-like transporter family; Region: EamA; pfam00892 246200003455 Protein of unknown function (DUF1036); Region: DUF1036; pfam06282 246200003456 transcriptional regulator BetI; Validated; Region: PRK00767 246200003457 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200003458 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 246200003459 Sulfatase; Region: Sulfatase; cl17466 246200003460 choline-sulfatase; Region: chol_sulfatase; TIGR03417 246200003461 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 246200003462 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 246200003463 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 246200003464 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 246200003465 tetramer interface [polypeptide binding]; other site 246200003466 active site 246200003467 Mg2+/Mn2+ binding site [ion binding]; other site 246200003468 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 246200003469 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200003470 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 246200003471 BCCT family transporter; Region: BCCT; cl00569 246200003472 choline dehydrogenase; Validated; Region: PRK02106 246200003473 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 246200003474 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 246200003475 Protein of unknown function (DUF465); Region: DUF465; cl01070 246200003476 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 246200003477 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 246200003478 non-specific DNA binding site [nucleotide binding]; other site 246200003479 salt bridge; other site 246200003480 sequence-specific DNA binding site [nucleotide binding]; other site 246200003481 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 246200003482 Domain of unknown function (DUF955); Region: DUF955; pfam06114 246200003483 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 246200003484 YCII-related domain; Region: YCII; cl00999 246200003485 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200003486 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200003487 LysR substrate binding domain; Region: LysR_substrate; pfam03466 246200003488 dimerization interface [polypeptide binding]; other site 246200003489 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 246200003490 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200003491 putative substrate translocation pore; other site 246200003492 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 246200003493 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 246200003494 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 246200003495 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 246200003496 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 246200003497 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 246200003498 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 246200003499 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 246200003500 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 246200003501 carboxyltransferase (CT) interaction site; other site 246200003502 biotinylation site [posttranslational modification]; other site 246200003503 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 246200003504 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 246200003505 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 246200003506 active site 246200003507 substrate binding site [chemical binding]; other site 246200003508 coenzyme B12 binding site [chemical binding]; other site 246200003509 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 246200003510 B12 binding site [chemical binding]; other site 246200003511 cobalt ligand [ion binding]; other site 246200003512 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 246200003513 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 246200003514 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 246200003515 Coenzyme A binding pocket [chemical binding]; other site 246200003516 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 246200003517 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 246200003518 putative metal binding site [ion binding]; other site 246200003519 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 246200003520 HSP70 interaction site [polypeptide binding]; other site 246200003521 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 246200003522 putative catalytic site [active] 246200003523 putative metal binding site [ion binding]; other site 246200003524 putative phosphate binding site [ion binding]; other site 246200003525 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200003526 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200003527 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 246200003528 dimerization interface [polypeptide binding]; other site 246200003529 hypothetical protein; Provisional; Region: PRK05463 246200003530 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200003531 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 246200003532 DctM-like transporters; Region: DctM; pfam06808 246200003533 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 246200003534 Protein of unknown function (DUF2848); Region: DUF2848; pfam11010 246200003535 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 246200003536 exopolyphosphatase; Region: exo_poly_only; TIGR03706 246200003537 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 246200003538 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 246200003539 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 246200003540 Domain of unknown function DUF20; Region: UPF0118; pfam01594 246200003541 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 246200003542 Autoinducer binding domain; Region: Autoind_bind; pfam03472 246200003543 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 246200003544 DNA binding residues [nucleotide binding] 246200003545 dimerization interface [polypeptide binding]; other site 246200003546 prolyl-tRNA synthetase; Provisional; Region: PRK12325 246200003547 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 246200003548 dimer interface [polypeptide binding]; other site 246200003549 motif 1; other site 246200003550 active site 246200003551 motif 2; other site 246200003552 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 246200003553 active site 246200003554 motif 3; other site 246200003555 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 246200003556 anticodon binding site; other site 246200003557 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 246200003558 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 246200003559 FtsX-like permease family; Region: FtsX; pfam02687 246200003560 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 246200003561 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 246200003562 Walker A/P-loop; other site 246200003563 ATP binding site [chemical binding]; other site 246200003564 Q-loop/lid; other site 246200003565 ABC transporter signature motif; other site 246200003566 Walker B; other site 246200003567 D-loop; other site 246200003568 H-loop/switch region; other site 246200003569 Cytochrome c; Region: Cytochrom_C; pfam00034 246200003570 Cytochrome c; Region: Cytochrom_C; pfam00034 246200003571 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 246200003572 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 246200003573 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 246200003574 CoenzymeA binding site [chemical binding]; other site 246200003575 subunit interaction site [polypeptide binding]; other site 246200003576 PHB binding site; other site 246200003577 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 246200003578 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 246200003579 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200003580 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 246200003581 Walker A/P-loop; other site 246200003582 ATP binding site [chemical binding]; other site 246200003583 Q-loop/lid; other site 246200003584 ABC transporter signature motif; other site 246200003585 Walker B; other site 246200003586 D-loop; other site 246200003587 H-loop/switch region; other site 246200003588 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 246200003589 dimer interface [polypeptide binding]; other site 246200003590 conserved gate region; other site 246200003591 putative PBP binding loops; other site 246200003592 ABC-ATPase subunit interface; other site 246200003593 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 246200003594 dimer interface [polypeptide binding]; other site 246200003595 conserved gate region; other site 246200003596 putative PBP binding loops; other site 246200003597 ABC-ATPase subunit interface; other site 246200003598 NnrU protein; Region: NnrU; pfam07298 246200003599 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 246200003600 hypothetical protein; Provisional; Region: PRK07482 246200003601 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 246200003602 inhibitor-cofactor binding pocket; inhibition site 246200003603 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200003604 catalytic residue [active] 246200003605 succinic semialdehyde dehydrogenase; Region: PLN02278 246200003606 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 246200003607 tetramerization interface [polypeptide binding]; other site 246200003608 NAD(P) binding site [chemical binding]; other site 246200003609 catalytic residues [active] 246200003610 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200003611 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 246200003612 putative DNA binding site [nucleotide binding]; other site 246200003613 putative Zn2+ binding site [ion binding]; other site 246200003614 AsnC family; Region: AsnC_trans_reg; pfam01037 246200003615 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 246200003616 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 246200003617 putative active site [active] 246200003618 Zn binding site [ion binding]; other site 246200003619 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 246200003620 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 246200003621 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 246200003622 active site 246200003623 ectoine utilization protein EutC; Region: ectoine_eutC; TIGR02992 246200003624 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 246200003625 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 246200003626 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 246200003627 tetramer interface [polypeptide binding]; other site 246200003628 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200003629 catalytic residue [active] 246200003630 ectoine utilization protein EutA; Region: ectoine_eutA; TIGR02990 246200003631 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 246200003632 Ligand Binding Site [chemical binding]; other site 246200003633 DctM-like transporters; Region: DctM; pfam06808 246200003634 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 246200003635 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 246200003636 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200003637 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200003638 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200003639 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 246200003640 DNA-binding site [nucleotide binding]; DNA binding site 246200003641 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 246200003642 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200003643 homodimer interface [polypeptide binding]; other site 246200003644 catalytic residue [active] 246200003645 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 246200003646 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 246200003647 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 246200003648 translation initiation factor IF-2 subunit beta; Provisional; Region: PRK12336 246200003649 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 246200003650 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 246200003651 metal binding site [ion binding]; metal-binding site 246200003652 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 246200003653 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 246200003654 substrate binding site [chemical binding]; other site 246200003655 glutamase interaction surface [polypeptide binding]; other site 246200003656 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 246200003657 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 246200003658 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 246200003659 catalytic residues [active] 246200003660 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 246200003661 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 246200003662 putative catalytic residues [active] 246200003663 Cupin; Region: Cupin_6; pfam12852 246200003664 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 246200003665 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200003666 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 246200003667 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 246200003668 putative active site [active] 246200003669 oxyanion strand; other site 246200003670 catalytic triad [active] 246200003671 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 246200003672 putative active site pocket [active] 246200003673 4-fold oligomerization interface [polypeptide binding]; other site 246200003674 metal binding residues [ion binding]; metal-binding site 246200003675 3-fold/trimer interface [polypeptide binding]; other site 246200003676 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200003677 AsnC family; Region: AsnC_trans_reg; pfam01037 246200003678 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 246200003679 metal ion-dependent adhesion site (MIDAS); other site 246200003680 aminotransferase; Provisional; Region: PRK06105 246200003681 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 246200003682 inhibitor-cofactor binding pocket; inhibition site 246200003683 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200003684 catalytic residue [active] 246200003685 pyruvate carboxylase; Reviewed; Region: PRK12999 246200003686 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 246200003687 ATP-grasp domain; Region: ATP-grasp_4; cl17255 246200003688 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 246200003689 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 246200003690 active site 246200003691 catalytic residues [active] 246200003692 metal binding site [ion binding]; metal-binding site 246200003693 homodimer binding site [polypeptide binding]; other site 246200003694 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 246200003695 carboxyltransferase (CT) interaction site; other site 246200003696 biotinylation site [posttranslational modification]; other site 246200003697 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 246200003698 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 246200003699 phosphate binding site [ion binding]; other site 246200003700 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 246200003701 GAF domain; Region: GAF_3; pfam13492 246200003702 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 246200003703 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 246200003704 metal binding site [ion binding]; metal-binding site 246200003705 active site 246200003706 I-site; other site 246200003707 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 246200003708 Part of AAA domain; Region: AAA_19; pfam13245 246200003709 Family description; Region: UvrD_C_2; pfam13538 246200003710 K+ potassium transporter; Region: K_trans; cl15781 246200003711 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 246200003712 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 246200003713 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 246200003714 active site 246200003715 metal binding site [ion binding]; metal-binding site 246200003716 hexamer interface [polypeptide binding]; other site 246200003717 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 246200003718 cell division protein MraZ; Reviewed; Region: PRK00326 246200003719 MraZ protein; Region: MraZ; pfam02381 246200003720 MraZ protein; Region: MraZ; pfam02381 246200003721 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 246200003722 MraW methylase family; Region: Methyltransf_5; cl17771 246200003723 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 246200003724 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 246200003725 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 246200003726 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 246200003727 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 246200003728 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 246200003729 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 246200003730 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 246200003731 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 246200003732 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 246200003733 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 246200003734 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 246200003735 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 246200003736 Mg++ binding site [ion binding]; other site 246200003737 putative catalytic motif [active] 246200003738 putative substrate binding site [chemical binding]; other site 246200003739 Tetratricopeptide repeat; Region: TPR_12; pfam13424 246200003740 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 246200003741 binding surface 246200003742 TPR motif; other site 246200003743 Tetratricopeptide repeat; Region: TPR_12; pfam13424 246200003744 Tetratricopeptide repeat; Region: TPR_12; pfam13424 246200003745 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 246200003746 binding surface 246200003747 TPR motif; other site 246200003748 Tetratricopeptide repeat; Region: TPR_12; pfam13424 246200003749 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 246200003750 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 246200003751 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 246200003752 Predicted flavoproteins [General function prediction only]; Region: COG2081 246200003753 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 246200003754 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 246200003755 Predicted transcriptional regulators [Transcription]; Region: COG1733 246200003756 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 246200003757 glutathionine S-transferase; Provisional; Region: PRK10542 246200003758 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 246200003759 C-terminal domain interface [polypeptide binding]; other site 246200003760 GSH binding site (G-site) [chemical binding]; other site 246200003761 dimer interface [polypeptide binding]; other site 246200003762 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 246200003763 dimer interface [polypeptide binding]; other site 246200003764 N-terminal domain interface [polypeptide binding]; other site 246200003765 substrate binding pocket (H-site) [chemical binding]; other site 246200003766 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 246200003767 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 246200003768 active site 1 [active] 246200003769 dimer interface [polypeptide binding]; other site 246200003770 hexamer interface [polypeptide binding]; other site 246200003771 active site 2 [active] 246200003772 cell division protein FtsW; Region: ftsW; TIGR02614 246200003773 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 246200003774 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 246200003775 active site 246200003776 homodimer interface [polypeptide binding]; other site 246200003777 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 246200003778 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 246200003779 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 246200003780 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 246200003781 amino acid transporter; Region: 2A0306; TIGR00909 246200003782 Protein of unknown function (DUF2484); Region: DUF2484; pfam10658 246200003783 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 246200003784 FAD binding domain; Region: FAD_binding_4; pfam01565 246200003785 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 246200003786 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 246200003787 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 246200003788 ATP-grasp domain; Region: ATP-grasp_4; cl17255 246200003789 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 246200003790 Cell division protein FtsQ; Region: FtsQ; pfam03799 246200003791 Cell division protein FtsA; Region: FtsA; smart00842 246200003792 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 246200003793 Cell division protein FtsA; Region: FtsA; pfam14450 246200003794 cell division protein FtsZ; Validated; Region: PRK09330 246200003795 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 246200003796 nucleotide binding site [chemical binding]; other site 246200003797 SulA interaction site; other site 246200003798 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 246200003799 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 246200003800 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 246200003801 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 246200003802 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 246200003803 Walker A/P-loop; other site 246200003804 ATP binding site [chemical binding]; other site 246200003805 Q-loop/lid; other site 246200003806 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 246200003807 ABC transporter signature motif; other site 246200003808 Walker B; other site 246200003809 D-loop; other site 246200003810 H-loop/switch region; other site 246200003811 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 246200003812 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 246200003813 Cl- selectivity filter; other site 246200003814 Cl- binding residues [ion binding]; other site 246200003815 pore gating glutamate residue; other site 246200003816 dimer interface [polypeptide binding]; other site 246200003817 Uncharacterized conserved protein [Function unknown]; Region: COG5476 246200003818 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 246200003819 MlrC C-terminus; Region: MlrC_C; pfam07171 246200003820 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200003821 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 246200003822 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200003823 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 246200003824 dimer interface [polypeptide binding]; other site 246200003825 conserved gate region; other site 246200003826 putative PBP binding loops; other site 246200003827 ABC-ATPase subunit interface; other site 246200003828 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 246200003829 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 246200003830 ABC-ATPase subunit interface; other site 246200003831 putative PBP binding loops; other site 246200003832 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 246200003833 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200003834 Walker A/P-loop; other site 246200003835 ATP binding site [chemical binding]; other site 246200003836 Q-loop/lid; other site 246200003837 ABC transporter signature motif; other site 246200003838 Walker B; other site 246200003839 D-loop; other site 246200003840 H-loop/switch region; other site 246200003841 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 246200003842 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200003843 Walker A/P-loop; other site 246200003844 ATP binding site [chemical binding]; other site 246200003845 Q-loop/lid; other site 246200003846 ABC transporter signature motif; other site 246200003847 Walker B; other site 246200003848 D-loop; other site 246200003849 H-loop/switch region; other site 246200003850 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200003851 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 246200003852 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 246200003853 metal binding site [ion binding]; metal-binding site 246200003854 putative dimer interface [polypeptide binding]; other site 246200003855 hypothetical protein; Provisional; Region: PRK07338 246200003856 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 246200003857 metal binding site [ion binding]; metal-binding site 246200003858 dimer interface [polypeptide binding]; other site 246200003859 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 246200003860 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 246200003861 non-specific DNA binding site [nucleotide binding]; other site 246200003862 salt bridge; other site 246200003863 sequence-specific DNA binding site [nucleotide binding]; other site 246200003864 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 246200003865 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 246200003866 Int/Topo IB signature motif; other site 246200003867 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 246200003868 active site 246200003869 DNA binding site [nucleotide binding] 246200003870 Int/Topo IB signature motif; other site 246200003871 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 246200003872 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 246200003873 catalytic residues [active] 246200003874 catalytic nucleophile [active] 246200003875 Recombinase; Region: Recombinase; pfam07508 246200003876 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 246200003877 Domain of unknown function (DUF932); Region: DUF932; cl12129 246200003878 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 246200003879 AAA-like domain; Region: AAA_10; pfam12846 246200003880 Walker A motif; other site 246200003881 ATP binding site [chemical binding]; other site 246200003882 Walker B motif; other site 246200003883 Protein of unknown function (DUF3768); Region: DUF3768; pfam12599 246200003884 Predicted periplasmic protein [Function unknown]; Region: COG3904 246200003885 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 246200003886 non-specific DNA binding site [nucleotide binding]; other site 246200003887 salt bridge; other site 246200003888 sequence-specific DNA binding site [nucleotide binding]; other site 246200003889 AAA-like domain; Region: AAA_10; pfam12846 246200003890 Replication-relaxation; Region: Replic_Relax; pfam13814 246200003891 H-NS histone family; Region: Histone_HNS; pfam00816 246200003892 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 246200003893 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 246200003894 homodimer interface [polypeptide binding]; other site 246200003895 putative active site [active] 246200003896 catalytic site [active] 246200003897 DEAD-like helicases superfamily; Region: DEXDc; smart00487 246200003898 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 246200003899 ATP binding site [chemical binding]; other site 246200003900 putative Mg++ binding site [ion binding]; other site 246200003901 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 246200003902 Predicted ATPase [General function prediction only]; Region: COG5293 246200003903 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 246200003904 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200003905 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 246200003906 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 246200003907 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 246200003908 cobyric acid synthase; Provisional; Region: PRK00784 246200003909 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 246200003910 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 246200003911 catalytic triad [active] 246200003912 elongation factor P; Validated; Region: PRK00529 246200003913 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 246200003914 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 246200003915 RNA binding site [nucleotide binding]; other site 246200003916 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 246200003917 RNA binding site [nucleotide binding]; other site 246200003918 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 246200003919 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 246200003920 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 246200003921 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200003922 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 246200003923 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 246200003924 Probable Catalytic site; other site 246200003925 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 246200003926 mce related protein; Region: MCE; pfam02470 246200003927 mce related protein; Region: MCE; pfam02470 246200003928 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 246200003929 Protein of unknown function (DUF330); Region: DUF330; pfam03886 246200003930 Predicted transcriptional regulators [Transcription]; Region: COG1695 246200003931 Transcriptional regulator PadR-like family; Region: PadR; cl17335 246200003932 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 246200003933 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 246200003934 ATP binding site [chemical binding]; other site 246200003935 Mg2+ binding site [ion binding]; other site 246200003936 G-X-G motif; other site 246200003937 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 246200003938 anchoring element; other site 246200003939 dimer interface [polypeptide binding]; other site 246200003940 ATP binding site [chemical binding]; other site 246200003941 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 246200003942 active site 246200003943 metal binding site [ion binding]; metal-binding site 246200003944 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 246200003945 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 246200003946 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 246200003947 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 246200003948 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 246200003949 putative C-terminal domain interface [polypeptide binding]; other site 246200003950 putative GSH binding site (G-site) [chemical binding]; other site 246200003951 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200003952 putative dimer interface [polypeptide binding]; other site 246200003953 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 246200003954 putative N-terminal domain interface [polypeptide binding]; other site 246200003955 putative dimer interface [polypeptide binding]; other site 246200003956 putative substrate binding pocket (H-site) [chemical binding]; other site 246200003957 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 246200003958 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 246200003959 TIGR02453 family protein; Region: TIGR02453 246200003960 multidrug efflux protein; Reviewed; Region: PRK01766 246200003961 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 246200003962 cation binding site [ion binding]; other site 246200003963 MarR family; Region: MarR_2; pfam12802 246200003964 Transcriptional regulators [Transcription]; Region: MarR; COG1846 246200003965 EamA-like transporter family; Region: EamA; pfam00892 246200003966 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 246200003967 EamA-like transporter family; Region: EamA; pfam00892 246200003968 aspartate aminotransferase; Provisional; Region: PRK05764 246200003969 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 246200003970 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200003971 homodimer interface [polypeptide binding]; other site 246200003972 catalytic residue [active] 246200003973 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 246200003974 non-specific DNA binding site [nucleotide binding]; other site 246200003975 salt bridge; other site 246200003976 sequence-specific DNA binding site [nucleotide binding]; other site 246200003977 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 246200003978 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 246200003979 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 246200003980 Protein of unknown function (DUF1194); Region: DUF1194; pfam06707 246200003981 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 246200003982 dimer interface [polypeptide binding]; other site 246200003983 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200003984 active site 246200003985 metal binding site [ion binding]; metal-binding site 246200003986 glutathione binding site [chemical binding]; other site 246200003987 Tetratricopeptide repeat; Region: TPR_16; pfam13432 246200003988 Protein of unknown function (DUF560); Region: DUF560; pfam04575 246200003989 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 246200003990 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 246200003991 DNA-binding site [nucleotide binding]; DNA binding site 246200003992 RNA-binding motif; other site 246200003993 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 246200003994 ArsC family; Region: ArsC; pfam03960 246200003995 Predicted membrane protein [Function unknown]; Region: COG2259 246200003996 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 246200003997 hypothetical protein; Provisional; Region: PRK05409 246200003998 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 246200003999 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 246200004000 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 246200004001 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 246200004002 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 246200004003 active site 246200004004 dimer interface [polypeptide binding]; other site 246200004005 motif 1; other site 246200004006 motif 2; other site 246200004007 motif 3; other site 246200004008 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 246200004009 anticodon binding site; other site 246200004010 MAPEG family; Region: MAPEG; pfam01124 246200004011 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 246200004012 dimerization interface [polypeptide binding]; other site 246200004013 putative DNA binding site [nucleotide binding]; other site 246200004014 putative Zn2+ binding site [ion binding]; other site 246200004015 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 246200004016 hydrophobic ligand binding site; other site 246200004017 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200004018 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200004019 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 246200004020 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200004021 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 246200004022 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 246200004023 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 246200004024 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 246200004025 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 246200004026 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 246200004027 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 246200004028 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 246200004029 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 246200004030 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 246200004031 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200004032 catalytic residue [active] 246200004033 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 246200004034 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 246200004035 active site 246200004036 catalytic tetrad [active] 246200004037 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200004038 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200004039 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 246200004040 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 246200004041 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 246200004042 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 246200004043 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 246200004044 catalytic triad [active] 246200004045 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 246200004046 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 246200004047 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200004048 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200004049 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 246200004050 dimer interface [polypeptide binding]; other site 246200004051 conserved gate region; other site 246200004052 putative PBP binding loops; other site 246200004053 ABC-ATPase subunit interface; other site 246200004054 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 246200004055 dimer interface [polypeptide binding]; other site 246200004056 conserved gate region; other site 246200004057 putative PBP binding loops; other site 246200004058 ABC-ATPase subunit interface; other site 246200004059 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 246200004060 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 246200004061 substrate binding pocket [chemical binding]; other site 246200004062 membrane-bound complex binding site; other site 246200004063 hinge residues; other site 246200004064 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 246200004065 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 246200004066 Walker A/P-loop; other site 246200004067 ATP binding site [chemical binding]; other site 246200004068 Q-loop/lid; other site 246200004069 ABC transporter signature motif; other site 246200004070 Walker B; other site 246200004071 D-loop; other site 246200004072 H-loop/switch region; other site 246200004073 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 246200004074 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 246200004075 putative metal binding site [ion binding]; other site 246200004076 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 246200004077 putative metal binding site [ion binding]; other site 246200004078 Uncharacterized conserved protein [Function unknown]; Region: COG5470 246200004079 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 246200004080 active site 246200004081 dimer interface [polypeptide binding]; other site 246200004082 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 246200004083 CTP synthetase; Validated; Region: pyrG; PRK05380 246200004084 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 246200004085 Catalytic site [active] 246200004086 active site 246200004087 UTP binding site [chemical binding]; other site 246200004088 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 246200004089 active site 246200004090 putative oxyanion hole; other site 246200004091 catalytic triad [active] 246200004092 Preprotein translocase SecG subunit; Region: SecG; cl09123 246200004093 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 246200004094 ribosomal natural product, two-chain TOMM family; Region: RNP_Burkhold; TIGR03795 246200004095 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 246200004096 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 246200004097 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 246200004098 nitrile hydratase accessory protein; Region: nitrile_acc; TIGR03889 246200004099 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 246200004100 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 246200004101 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 246200004102 GDP-binding site [chemical binding]; other site 246200004103 ACT binding site; other site 246200004104 IMP binding site; other site 246200004105 Thiamine pyrophosphokinase; Region: TPK; cd07995 246200004106 active site 246200004107 thiamine binding site [chemical binding]; other site 246200004108 dimerization interface [polypeptide binding]; other site 246200004109 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200004110 EamA-like transporter family; Region: EamA; cl17759 246200004111 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 246200004112 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 246200004113 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 246200004114 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 246200004115 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200004116 C-terminal domain interface [polypeptide binding]; other site 246200004117 GSH binding site (G-site) [chemical binding]; other site 246200004118 dimer interface [polypeptide binding]; other site 246200004119 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 246200004120 dimer interface [polypeptide binding]; other site 246200004121 N-terminal domain interface [polypeptide binding]; other site 246200004122 substrate binding pocket (H-site) [chemical binding]; other site 246200004123 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 246200004124 MarR family; Region: MarR_2; pfam12802 246200004125 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 246200004126 tetramer (dimer of dimers) interface [polypeptide binding]; other site 246200004127 active site 246200004128 dimer interface [polypeptide binding]; other site 246200004129 glutathione reductase; Validated; Region: PRK06116 246200004130 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 246200004131 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 246200004132 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 246200004133 HflK protein; Region: hflK; TIGR01933 246200004134 HflC protein; Region: hflC; TIGR01932 246200004135 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 246200004136 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 246200004137 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 246200004138 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 246200004139 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 246200004140 protein binding site [polypeptide binding]; other site 246200004141 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 246200004142 protein binding site [polypeptide binding]; other site 246200004143 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 246200004144 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 246200004145 ligand binding site [chemical binding]; other site 246200004146 flexible hinge region; other site 246200004147 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 246200004148 putative switch regulator; other site 246200004149 non-specific DNA interactions [nucleotide binding]; other site 246200004150 DNA binding site [nucleotide binding] 246200004151 sequence specific DNA binding site [nucleotide binding]; other site 246200004152 putative cAMP binding site [chemical binding]; other site 246200004153 Intracellular septation protein A; Region: IspA; pfam04279 246200004154 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 246200004155 EamA-like transporter family; Region: EamA; pfam00892 246200004156 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 246200004157 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 246200004158 P loop; other site 246200004159 GTP binding site [chemical binding]; other site 246200004160 YhhN-like protein; Region: YhhN; pfam07947 246200004161 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 246200004162 Di-iron ligands [ion binding]; other site 246200004163 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200004164 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 246200004165 putative C-terminal domain interface [polypeptide binding]; other site 246200004166 putative GSH binding site (G-site) [chemical binding]; other site 246200004167 putative dimer interface [polypeptide binding]; other site 246200004168 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 246200004169 putative N-terminal domain interface [polypeptide binding]; other site 246200004170 putative dimer interface [polypeptide binding]; other site 246200004171 putative substrate binding pocket (H-site) [chemical binding]; other site 246200004172 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 246200004173 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 246200004174 generic binding surface I; other site 246200004175 generic binding surface II; other site 246200004176 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 246200004177 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 246200004178 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 246200004179 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 246200004180 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 246200004181 PAS domain; Region: PAS_9; pfam13426 246200004182 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 246200004183 putative active site [active] 246200004184 heme pocket [chemical binding]; other site 246200004185 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200004186 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 246200004187 DNA binding residues [nucleotide binding] 246200004188 dimerization interface [polypeptide binding]; other site 246200004189 Family description; Region: VCBS; pfam13517 246200004190 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 246200004191 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 246200004192 catalytic loop [active] 246200004193 iron binding site [ion binding]; other site 246200004194 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 246200004195 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 246200004196 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 246200004197 homodimer interface [polypeptide binding]; other site 246200004198 substrate-cofactor binding pocket; other site 246200004199 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200004200 catalytic residue [active] 246200004201 putative GTP cyclohydrolase; Provisional; Region: PRK13674 246200004202 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 246200004203 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 246200004204 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 246200004205 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 246200004206 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 246200004207 glycyl-tRNA synthetase subunit alpha; Validated; Region: glyQ; PRK09348 246200004208 motif 1; other site 246200004209 dimer interface [polypeptide binding]; other site 246200004210 active site 246200004211 motif 2; other site 246200004212 motif 3; other site 246200004213 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 246200004214 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 246200004215 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 246200004216 pyruvate phosphate dikinase; Provisional; Region: PRK09279 246200004217 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 246200004218 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 246200004219 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 246200004220 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 246200004221 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 246200004222 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 246200004223 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 246200004224 Dihydroneopterin aldolase; Region: FolB; smart00905 246200004225 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 246200004226 dihydropteroate synthase; Region: DHPS; TIGR01496 246200004227 substrate binding pocket [chemical binding]; other site 246200004228 dimer interface [polypeptide binding]; other site 246200004229 inhibitor binding site; inhibition site 246200004230 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 246200004231 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 246200004232 active site 246200004233 substrate binding site [chemical binding]; other site 246200004234 metal binding site [ion binding]; metal-binding site 246200004235 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200004236 EamA-like transporter family; Region: EamA; pfam00892 246200004237 ketol-acid reductoisomerase; Provisional; Region: PRK05479 246200004238 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 246200004239 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 246200004240 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200004241 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 246200004242 putative DNA binding site [nucleotide binding]; other site 246200004243 putative Zn2+ binding site [ion binding]; other site 246200004244 AsnC family; Region: AsnC_trans_reg; pfam01037 246200004245 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200004246 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 246200004247 putative DNA binding site [nucleotide binding]; other site 246200004248 putative Zn2+ binding site [ion binding]; other site 246200004249 AsnC family; Region: AsnC_trans_reg; pfam01037 246200004250 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200004251 DNA-binding site [nucleotide binding]; DNA binding site 246200004252 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 246200004253 UTRA domain; Region: UTRA; pfam07702 246200004254 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 246200004255 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200004256 catalytic residue [active] 246200004257 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 246200004258 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 246200004259 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 246200004260 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 246200004261 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 246200004262 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 246200004263 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200004264 DNA-binding site [nucleotide binding]; DNA binding site 246200004265 Transcriptional regulators [Transcription]; Region: FadR; COG2186 246200004266 FCD domain; Region: FCD; pfam07729 246200004267 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 246200004268 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 246200004269 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 246200004270 DXD motif; other site 246200004271 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 246200004272 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 246200004273 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 246200004274 catalytic site [active] 246200004275 subunit interface [polypeptide binding]; other site 246200004276 Yqey-like protein; Region: YqeY; pfam09424 246200004277 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 246200004278 arogenate dehydrogenase; Region: PLN02256 246200004279 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 246200004280 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 246200004281 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 246200004282 Subunit I/III interface [polypeptide binding]; other site 246200004283 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 246200004284 D-pathway; other site 246200004285 Subunit I/VIIc interface [polypeptide binding]; other site 246200004286 Subunit I/IV interface [polypeptide binding]; other site 246200004287 Subunit I/II interface [polypeptide binding]; other site 246200004288 Low-spin heme (heme a) binding site [chemical binding]; other site 246200004289 Subunit I/VIIa interface [polypeptide binding]; other site 246200004290 Subunit I/VIa interface [polypeptide binding]; other site 246200004291 Dimer interface; other site 246200004292 Putative water exit pathway; other site 246200004293 Binuclear center (heme a3/CuB) [ion binding]; other site 246200004294 K-pathway; other site 246200004295 Subunit I/Vb interface [polypeptide binding]; other site 246200004296 Putative proton exit pathway; other site 246200004297 Subunit I/VIb interface; other site 246200004298 Subunit I/VIc interface [polypeptide binding]; other site 246200004299 Electron transfer pathway; other site 246200004300 Subunit I/VIIIb interface [polypeptide binding]; other site 246200004301 Subunit I/VIIb interface [polypeptide binding]; other site 246200004302 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 246200004303 hypothetical protein; Provisional; Region: PRK07877 246200004304 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 246200004305 HIT family signature motif; other site 246200004306 catalytic residue [active] 246200004307 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 246200004308 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200004309 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 246200004310 DNA binding residues [nucleotide binding] 246200004311 dimerization interface [polypeptide binding]; other site 246200004312 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 246200004313 lipoate-protein ligase B; Provisional; Region: PRK14341 246200004314 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 246200004315 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 246200004316 catalytic residues [active] 246200004317 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 246200004318 Uncharacterized conserved protein [Function unknown]; Region: COG2128 246200004319 Predicted transcriptional regulator [Transcription]; Region: COG1959 246200004320 Transcriptional regulator; Region: Rrf2; pfam02082 246200004321 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 246200004322 Beta-lactamase; Region: Beta-lactamase; pfam00144 246200004323 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 246200004324 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200004325 H+ Antiporter protein; Region: 2A0121; TIGR00900 246200004326 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 246200004327 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 246200004328 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 246200004329 lipoyl attachment site [posttranslational modification]; other site 246200004330 HlyD family secretion protein; Region: HlyD_3; pfam13437 246200004331 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200004332 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 246200004333 conserved cys residue [active] 246200004334 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200004335 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 246200004336 hypothetical protein; Provisional; Region: PRK07483 246200004337 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 246200004338 inhibitor-cofactor binding pocket; inhibition site 246200004339 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200004340 catalytic residue [active] 246200004341 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 246200004342 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 246200004343 active site 246200004344 HIGH motif; other site 246200004345 KMSKS motif; other site 246200004346 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 246200004347 tRNA binding surface [nucleotide binding]; other site 246200004348 anticodon binding site; other site 246200004349 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 246200004350 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200004351 putative substrate translocation pore; other site 246200004352 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 246200004353 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 246200004354 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 246200004355 RNA binding surface [nucleotide binding]; other site 246200004356 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 246200004357 active site 246200004358 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 246200004359 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 246200004360 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 246200004361 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 246200004362 DNA binding residues [nucleotide binding] 246200004363 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 246200004364 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 246200004365 active site 246200004366 dimer interface [polypeptide binding]; other site 246200004367 hypothetical protein; Provisional; Region: PRK11019 246200004368 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 246200004369 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 246200004370 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 246200004371 active site 246200004372 Zn binding site [ion binding]; other site 246200004373 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 246200004374 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 246200004375 SCP-2 sterol transfer family; Region: SCP2; pfam02036 246200004376 TPR repeat; Region: TPR_11; pfam13414 246200004377 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 246200004378 binding surface 246200004379 TPR motif; other site 246200004380 TPR repeat; Region: TPR_11; pfam13414 246200004381 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 246200004382 nucleotide binding region [chemical binding]; other site 246200004383 ATP-binding site [chemical binding]; other site 246200004384 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 246200004385 RNA binding surface [nucleotide binding]; other site 246200004386 Ferredoxin [Energy production and conversion]; Region: COG1146 246200004387 4Fe-4S binding domain; Region: Fer4; pfam00037 246200004388 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 246200004389 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 246200004390 Ion channel; Region: Ion_trans_2; pfam07885 246200004391 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 246200004392 cobalamin synthase; Reviewed; Region: cobS; PRK00235 246200004393 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 246200004394 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 246200004395 putative dimer interface [polypeptide binding]; other site 246200004396 active site pocket [active] 246200004397 putative cataytic base [active] 246200004398 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 246200004399 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 246200004400 TrkA-N domain; Region: TrkA_N; pfam02254 246200004401 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200004402 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 246200004403 AsnC family; Region: AsnC_trans_reg; pfam01037 246200004404 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 246200004405 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 246200004406 dimer interface [polypeptide binding]; other site 246200004407 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 246200004408 active site 246200004409 Fe binding site [ion binding]; other site 246200004410 Pilus assembly protein, PilP; Region: PilP; pfam04351 246200004411 Uncharacterized conserved protein [Function unknown]; Region: COG2968 246200004412 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 246200004413 H+ Antiporter protein; Region: 2A0121; TIGR00900 246200004414 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 246200004415 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 246200004416 homodimer interface [polypeptide binding]; other site 246200004417 substrate-cofactor binding pocket; other site 246200004418 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200004419 catalytic residue [active] 246200004420 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 246200004421 active site 246200004422 catalytic residue [active] 246200004423 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 246200004424 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 246200004425 active site 246200004426 catalytic tetrad [active] 246200004427 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200004428 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 246200004429 conserved cys residue [active] 246200004430 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200004431 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200004432 Uncharacterized conserved protein [Function unknown]; Region: COG3246 246200004433 bifunctional 3-hydroxyacyl-CoA dehydrogenase/thioesterase; Validated; Region: PRK07531 246200004434 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 246200004435 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200004436 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 246200004437 active site 246200004438 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 246200004439 classical (c) SDRs; Region: SDR_c; cd05233 246200004440 NAD(P) binding site [chemical binding]; other site 246200004441 active site 246200004442 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 246200004443 salt bridge; other site 246200004444 non-specific DNA binding site [nucleotide binding]; other site 246200004445 sequence-specific DNA binding site [nucleotide binding]; other site 246200004446 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 246200004447 Fatty acid desaturase; Region: FA_desaturase; pfam00487 246200004448 putative di-iron ligands [ion binding]; other site 246200004449 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 246200004450 DEAD-like helicases superfamily; Region: DEXDc; smart00487 246200004451 ATP binding site [chemical binding]; other site 246200004452 Mg++ binding site [ion binding]; other site 246200004453 motif III; other site 246200004454 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 246200004455 nucleotide binding region [chemical binding]; other site 246200004456 ATP-binding site [chemical binding]; other site 246200004457 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 246200004458 short chain dehydrogenase; Provisional; Region: PRK07577 246200004459 classical (c) SDRs; Region: SDR_c; cd05233 246200004460 NAD(P) binding site [chemical binding]; other site 246200004461 active site 246200004462 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 246200004463 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 246200004464 DUF35 OB-fold domain; Region: DUF35; pfam01796 246200004465 short chain dehydrogenase; Validated; Region: PRK08264 246200004466 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200004467 NAD(P) binding site [chemical binding]; other site 246200004468 active site 246200004469 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 246200004470 active site 246200004471 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 246200004472 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 246200004473 acyl-activating enzyme (AAE) consensus motif; other site 246200004474 putative AMP binding site [chemical binding]; other site 246200004475 putative active site [active] 246200004476 putative CoA binding site [chemical binding]; other site 246200004477 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 246200004478 inter-subunit interface; other site 246200004479 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 246200004480 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 246200004481 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 246200004482 putative alpha subunit interface [polypeptide binding]; other site 246200004483 putative active site [active] 246200004484 putative substrate binding site [chemical binding]; other site 246200004485 Fe binding site [ion binding]; other site 246200004486 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 246200004487 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 246200004488 FMN-binding pocket [chemical binding]; other site 246200004489 flavin binding motif; other site 246200004490 phosphate binding motif [ion binding]; other site 246200004491 beta-alpha-beta structure motif; other site 246200004492 NAD binding pocket [chemical binding]; other site 246200004493 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 246200004494 catalytic loop [active] 246200004495 iron binding site [ion binding]; other site 246200004496 MarR family; Region: MarR_2; cl17246 246200004497 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 246200004498 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200004499 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 246200004500 DctM-like transporters; Region: DctM; pfam06808 246200004501 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 246200004502 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 246200004503 active site 246200004504 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 246200004505 MarR family; Region: MarR_2; pfam12802 246200004506 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 246200004507 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 246200004508 dimer interface [polypeptide binding]; other site 246200004509 PYR/PP interface [polypeptide binding]; other site 246200004510 TPP binding site [chemical binding]; other site 246200004511 substrate binding site [chemical binding]; other site 246200004512 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 246200004513 TPP-binding site; other site 246200004514 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 246200004515 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 246200004516 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200004517 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 246200004518 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 246200004519 ligand binding site [chemical binding]; other site 246200004520 DctM-like transporters; Region: DctM; pfam06808 246200004521 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 246200004522 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 246200004523 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200004524 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200004525 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 246200004526 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 246200004527 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08269 246200004528 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 246200004529 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200004530 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 246200004531 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 246200004532 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200004533 homodimer interface [polypeptide binding]; other site 246200004534 catalytic residue [active] 246200004535 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 246200004536 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 246200004537 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 246200004538 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 246200004539 tetramer interface [polypeptide binding]; other site 246200004540 active site 246200004541 Mg2+/Mn2+ binding site [ion binding]; other site 246200004542 Isochorismatase family; Region: Isochorismatase; pfam00857 246200004543 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 246200004544 catalytic triad [active] 246200004545 conserved cis-peptide bond; other site 246200004546 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 246200004547 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 246200004548 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 246200004549 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 246200004550 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 246200004551 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 246200004552 active site 1 [active] 246200004553 dimer interface [polypeptide binding]; other site 246200004554 hexamer interface [polypeptide binding]; other site 246200004555 active site 2 [active] 246200004556 SnoaL-like domain; Region: SnoaL_2; pfam12680 246200004557 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 246200004558 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200004559 DNA-binding site [nucleotide binding]; DNA binding site 246200004560 UTRA domain; Region: UTRA; pfam07702 246200004561 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 246200004562 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 246200004563 substrate binding site [chemical binding]; other site 246200004564 ligand binding site [chemical binding]; other site 246200004565 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 246200004566 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 246200004567 hypothetical protein; Provisional; Region: PRK14812 246200004568 substrate binding site [chemical binding]; other site 246200004569 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 246200004570 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 246200004571 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 246200004572 DNA binding residues [nucleotide binding] 246200004573 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 246200004574 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 246200004575 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200004576 short chain dehydrogenase; Provisional; Region: PRK06101 246200004577 NAD(P) binding site [chemical binding]; other site 246200004578 active site 246200004579 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 246200004580 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 246200004581 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 246200004582 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 246200004583 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 246200004584 S-adenosylmethionine binding site [chemical binding]; other site 246200004585 MFS/sugar transport protein; Region: MFS_2; pfam13347 246200004586 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 246200004587 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200004588 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 246200004589 DNA binding residues [nucleotide binding] 246200004590 dimerization interface [polypeptide binding]; other site 246200004591 indole acetimide hydrolase; Validated; Region: PRK07488 246200004592 Amidase; Region: Amidase; pfam01425 246200004593 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 246200004594 Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides; Region: PBP1_NHase; cd06358 246200004595 putative ligand binding site [chemical binding]; other site 246200004596 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 246200004597 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 246200004598 TM-ABC transporter signature motif; other site 246200004599 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 246200004600 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 246200004601 TM-ABC transporter signature motif; other site 246200004602 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200004603 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200004604 Walker A/P-loop; other site 246200004605 ATP binding site [chemical binding]; other site 246200004606 Q-loop/lid; other site 246200004607 ABC transporter signature motif; other site 246200004608 Walker B; other site 246200004609 D-loop; other site 246200004610 H-loop/switch region; other site 246200004611 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200004612 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 246200004613 Walker A/P-loop; other site 246200004614 ATP binding site [chemical binding]; other site 246200004615 Q-loop/lid; other site 246200004616 ABC transporter signature motif; other site 246200004617 Walker B; other site 246200004618 D-loop; other site 246200004619 H-loop/switch region; other site 246200004620 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 246200004621 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 246200004622 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 246200004623 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 246200004624 Walker A/P-loop; other site 246200004625 ATP binding site [chemical binding]; other site 246200004626 Q-loop/lid; other site 246200004627 ABC transporter signature motif; other site 246200004628 Walker B; other site 246200004629 D-loop; other site 246200004630 H-loop/switch region; other site 246200004631 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 246200004632 FtsX-like permease family; Region: FtsX; pfam02687 246200004633 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 246200004634 FtsX-like permease family; Region: FtsX; pfam02687 246200004635 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 246200004636 HlyD family secretion protein; Region: HlyD_3; pfam13437 246200004637 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 246200004638 Fumarase C-terminus; Region: Fumerase_C; pfam05683 246200004639 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 246200004640 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 246200004641 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 246200004642 FeS/SAM binding site; other site 246200004643 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 246200004644 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; pfam05402 246200004645 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 246200004646 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 246200004647 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 246200004648 coenzyme PQQ synthesis protein PqqA; Provisional; Region: pqqA; PRK00284 246200004649 PAS fold; Region: PAS_7; pfam12860 246200004650 PAS fold; Region: PAS_7; pfam12860 246200004651 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 246200004652 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 246200004653 dimer interface [polypeptide binding]; other site 246200004654 phosphorylation site [posttranslational modification] 246200004655 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 246200004656 ATP binding site [chemical binding]; other site 246200004657 Mg2+ binding site [ion binding]; other site 246200004658 G-X-G motif; other site 246200004659 Response regulator receiver domain; Region: Response_reg; pfam00072 246200004660 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 246200004661 active site 246200004662 phosphorylation site [posttranslational modification] 246200004663 intermolecular recognition site; other site 246200004664 dimerization interface [polypeptide binding]; other site 246200004665 Uncharacterized conserved protein [Function unknown]; Region: COG3287 246200004666 FIST N domain; Region: FIST; pfam08495 246200004667 FIST C domain; Region: FIST_C; pfam10442 246200004668 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200004669 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 246200004670 active site 246200004671 phosphorylation site [posttranslational modification] 246200004672 intermolecular recognition site; other site 246200004673 dimerization interface [polypeptide binding]; other site 246200004674 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 246200004675 DNA binding residues [nucleotide binding] 246200004676 dimerization interface [polypeptide binding]; other site 246200004677 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 246200004678 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 246200004679 dimer interface [polypeptide binding]; other site 246200004680 Trp docking motif [polypeptide binding]; other site 246200004681 active site 246200004682 Cytochrome c; Region: Cytochrom_C; cl11414 246200004683 alcohol ABC transporter, permease protein; Region: phenyl_ABC_PedC; TIGR03861 246200004684 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 246200004685 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 246200004686 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200004687 Walker A/P-loop; other site 246200004688 ATP binding site [chemical binding]; other site 246200004689 Q-loop/lid; other site 246200004690 ABC transporter signature motif; other site 246200004691 Walker B; other site 246200004692 D-loop; other site 246200004693 H-loop/switch region; other site 246200004694 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 246200004695 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 246200004696 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 246200004697 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 246200004698 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 246200004699 ligand binding site [chemical binding]; other site 246200004700 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 246200004701 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 246200004702 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 246200004703 substrate binding pocket [chemical binding]; other site 246200004704 membrane-bound complex binding site; other site 246200004705 hinge residues; other site 246200004706 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 246200004707 putative hydrophobic ligand binding site [chemical binding]; other site 246200004708 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 246200004709 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 246200004710 catalytic loop [active] 246200004711 iron binding site [ion binding]; other site 246200004712 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 246200004713 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 246200004714 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 246200004715 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 246200004716 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 246200004717 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 246200004718 FMN-binding domain; Region: FMN_bind; cl01081 246200004719 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 246200004720 4Fe-4S binding domain; Region: Fer4_5; pfam12801 246200004721 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 246200004722 active site residue [active] 246200004723 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 246200004724 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 246200004725 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 246200004726 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 246200004727 Protein export membrane protein; Region: SecD_SecF; cl14618 246200004728 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 246200004729 HlyD family secretion protein; Region: HlyD_3; pfam13437 246200004730 Polyphosphate(polyP) polymerase domain of yeast vacuolar transport chaperone (VTC) proteins VTC-2, -3 and- 4, and similar proteins; Region: PolyPPase_VTC_like; cd07750 246200004731 putative metal binding residues [ion binding]; other site 246200004732 signature motif; other site 246200004733 dimer interface [polypeptide binding]; other site 246200004734 active site 246200004735 polyP binding site; other site 246200004736 substrate binding site [chemical binding]; other site 246200004737 acceptor-phosphate pocket; other site 246200004738 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 246200004739 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 246200004740 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 246200004741 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 246200004742 putative ADP-binding pocket [chemical binding]; other site 246200004743 Bacterial sugar transferase; Region: Bac_transf; cl00939 246200004744 Putative catalytic NodB homology domain of a hypothetical protein Ecf1 from Escherichia coli and similar proteins; Region: CE4_Ecf1_like_5s; cd10969 246200004745 putative active site [active] 246200004746 putative metal binding site [ion binding]; other site 246200004747 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 246200004748 colanic acid biosynthesis glycosyltransferase WcaL; Provisional; Region: PRK15427 246200004749 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 246200004750 putative ADP-binding pocket [chemical binding]; other site 246200004751 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 246200004752 O-Antigen ligase; Region: Wzy_C; pfam04932 246200004753 CESA_like_1 is a member of the cellulose synthase (CESA) superfamily; Region: CESA_like_1; cd06439 246200004754 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 246200004755 DXD motif; other site 246200004756 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200004757 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200004758 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 246200004759 dimerization interface [polypeptide binding]; other site 246200004760 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 246200004761 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 246200004762 active site 246200004763 dimer interface [polypeptide binding]; other site 246200004764 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 246200004765 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 246200004766 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200004767 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 246200004768 dimer interface [polypeptide binding]; other site 246200004769 conserved gate region; other site 246200004770 putative PBP binding loops; other site 246200004771 ABC-ATPase subunit interface; other site 246200004772 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 246200004773 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 246200004774 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 246200004775 dimer interface [polypeptide binding]; other site 246200004776 conserved gate region; other site 246200004777 ABC-ATPase subunit interface; other site 246200004778 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 246200004779 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200004780 Walker A/P-loop; other site 246200004781 ATP binding site [chemical binding]; other site 246200004782 Q-loop/lid; other site 246200004783 ABC transporter signature motif; other site 246200004784 Walker B; other site 246200004785 D-loop; other site 246200004786 H-loop/switch region; other site 246200004787 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200004788 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 246200004789 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200004790 Walker A/P-loop; other site 246200004791 ATP binding site [chemical binding]; other site 246200004792 Q-loop/lid; other site 246200004793 ABC transporter signature motif; other site 246200004794 Walker B; other site 246200004795 D-loop; other site 246200004796 H-loop/switch region; other site 246200004797 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 246200004798 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 246200004799 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 246200004800 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 246200004801 Walker A/P-loop; other site 246200004802 ATP binding site [chemical binding]; other site 246200004803 Q-loop/lid; other site 246200004804 ABC transporter signature motif; other site 246200004805 Walker B; other site 246200004806 D-loop; other site 246200004807 H-loop/switch region; other site 246200004808 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 246200004809 dimer interface [polypeptide binding]; other site 246200004810 conserved gate region; other site 246200004811 putative PBP binding loops; other site 246200004812 ABC-ATPase subunit interface; other site 246200004813 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 246200004814 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 246200004815 dimer interface [polypeptide binding]; other site 246200004816 conserved gate region; other site 246200004817 ABC-ATPase subunit interface; other site 246200004818 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 246200004819 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 246200004820 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 246200004821 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 246200004822 putative ligand binding site [chemical binding]; other site 246200004823 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 246200004824 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200004825 DNA-binding site [nucleotide binding]; DNA binding site 246200004826 FCD domain; Region: FCD; pfam07729 246200004827 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 246200004828 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 246200004829 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 246200004830 putative dimer interface [polypeptide binding]; other site 246200004831 [2Fe-2S] cluster binding site [ion binding]; other site 246200004832 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 246200004833 SLBB domain; Region: SLBB; pfam10531 246200004834 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 246200004835 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 246200004836 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 246200004837 catalytic loop [active] 246200004838 iron binding site [ion binding]; other site 246200004839 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; smart00929 246200004840 4Fe-4S binding domain; Region: Fer4; pfam00037 246200004841 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 246200004842 [4Fe-4S] binding site [ion binding]; other site 246200004843 molybdopterin cofactor binding site; other site 246200004844 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 246200004845 molybdopterin cofactor binding site; other site 246200004846 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 246200004847 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 246200004848 Potassium binding sites [ion binding]; other site 246200004849 Cesium cation binding sites [ion binding]; other site 246200004850 Chorismate mutase type II; Region: CM_2; smart00830 246200004851 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 246200004852 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 246200004853 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 246200004854 homodimer interface [polypeptide binding]; other site 246200004855 NADP binding site [chemical binding]; other site 246200004856 substrate binding site [chemical binding]; other site 246200004857 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 246200004858 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 246200004859 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 246200004860 homodimer interface [polypeptide binding]; other site 246200004861 NADP binding site [chemical binding]; other site 246200004862 substrate binding site [chemical binding]; other site 246200004863 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 246200004864 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200004865 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200004866 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 246200004867 heme-binding site [chemical binding]; other site 246200004868 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 246200004869 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 246200004870 MOFRL family; Region: MOFRL; pfam05161 246200004871 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 246200004872 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200004873 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 246200004874 active site 246200004875 phosphorylation site [posttranslational modification] 246200004876 intermolecular recognition site; other site 246200004877 dimerization interface [polypeptide binding]; other site 246200004878 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 246200004879 DNA binding residues [nucleotide binding] 246200004880 dimerization interface [polypeptide binding]; other site 246200004881 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 246200004882 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200004883 catalytic residue [active] 246200004884 malate--CoA ligase subunit beta; Provisional; Region: PRK14046 246200004885 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 246200004886 CoA-ligase; Region: Ligase_CoA; pfam00549 246200004887 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 246200004888 CoA binding domain; Region: CoA_binding; smart00881 246200004889 CoA-ligase; Region: Ligase_CoA; pfam00549 246200004890 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 246200004891 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 246200004892 dimerization interface [polypeptide binding]; other site 246200004893 ligand binding site [chemical binding]; other site 246200004894 NADP binding site [chemical binding]; other site 246200004895 catalytic site [active] 246200004896 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 246200004897 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 246200004898 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 246200004899 dimer interface [polypeptide binding]; other site 246200004900 active site 246200004901 glycine-pyridoxal phosphate binding site [chemical binding]; other site 246200004902 folate binding site [chemical binding]; other site 246200004903 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 246200004904 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 246200004905 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 246200004906 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 246200004907 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 246200004908 active site 246200004909 FMN binding site [chemical binding]; other site 246200004910 substrate binding site [chemical binding]; other site 246200004911 3Fe-4S cluster binding site [ion binding]; other site 246200004912 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 246200004913 domain_subunit interface; other site 246200004914 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 246200004915 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 246200004916 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 246200004917 putative active site [active] 246200004918 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 246200004919 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200004920 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200004921 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 246200004922 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 246200004923 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 246200004924 FMN-binding pocket [chemical binding]; other site 246200004925 flavin binding motif; other site 246200004926 phosphate binding motif [ion binding]; other site 246200004927 beta-alpha-beta structure motif; other site 246200004928 NAD binding pocket [chemical binding]; other site 246200004929 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 246200004930 catalytic loop [active] 246200004931 iron binding site [ion binding]; other site 246200004932 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 246200004933 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 246200004934 non-specific DNA binding site [nucleotide binding]; other site 246200004935 salt bridge; other site 246200004936 sequence-specific DNA binding site [nucleotide binding]; other site 246200004937 Cupin domain; Region: Cupin_2; pfam07883 246200004938 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200004939 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 246200004940 conserved cys residue [active] 246200004941 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200004942 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 246200004943 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 246200004944 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 246200004945 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200004946 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 246200004947 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 246200004948 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200004949 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 246200004950 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 246200004951 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 246200004952 [2Fe-2S] cluster binding site [ion binding]; other site 246200004953 Ring hydroxylating alpha subunit (catalytic domain); Region: Ring_hydroxyl_A; pfam00848 246200004954 hydrophobic ligand binding site; other site 246200004955 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 246200004956 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 246200004957 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 246200004958 putative active site [active] 246200004959 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200004960 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200004961 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200004962 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200004963 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 246200004964 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 246200004965 putative NAD(P) binding site [chemical binding]; other site 246200004966 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 246200004967 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 246200004968 metal binding site [ion binding]; metal-binding site 246200004969 substrate binding pocket [chemical binding]; other site 246200004970 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 246200004971 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cd00308 246200004972 metal binding site [ion binding]; metal-binding site 246200004973 substrate binding pocket [chemical binding]; other site 246200004974 Cupin domain; Region: Cupin_2; pfam07883 246200004975 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 246200004976 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 246200004977 inhibitor-cofactor binding pocket; inhibition site 246200004978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200004979 catalytic residue [active] 246200004980 Uncharacterized conserved protein [Function unknown]; Region: COG3777 246200004981 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 246200004982 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 246200004983 active site 2 [active] 246200004984 active site 1 [active] 246200004985 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 246200004986 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 246200004987 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 246200004988 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 246200004989 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 246200004990 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 246200004991 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 246200004992 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 246200004993 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200004994 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200004995 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 246200004996 dimerization interface [polypeptide binding]; other site 246200004997 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 246200004998 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 246200004999 active site 246200005000 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 246200005001 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 246200005002 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 246200005003 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 246200005004 dimer interface [polypeptide binding]; other site 246200005005 conserved gate region; other site 246200005006 putative PBP binding loops; other site 246200005007 ABC-ATPase subunit interface; other site 246200005008 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 246200005009 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 246200005010 dimer interface [polypeptide binding]; other site 246200005011 conserved gate region; other site 246200005012 putative PBP binding loops; other site 246200005013 ABC-ATPase subunit interface; other site 246200005014 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 246200005015 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200005016 Walker A/P-loop; other site 246200005017 ATP binding site [chemical binding]; other site 246200005018 Q-loop/lid; other site 246200005019 ABC transporter signature motif; other site 246200005020 Walker B; other site 246200005021 D-loop; other site 246200005022 H-loop/switch region; other site 246200005023 TOBE domain; Region: TOBE_2; pfam08402 246200005024 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200005025 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 246200005026 DNA binding residues [nucleotide binding] 246200005027 dimerization interface [polypeptide binding]; other site 246200005028 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 246200005029 DsrE/DsrF/DrsH-like family; Region: DrsE_2; cl17453 246200005030 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 246200005031 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 246200005032 ligand binding site [chemical binding]; other site 246200005033 flexible hinge region; other site 246200005034 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 246200005035 putative switch regulator; other site 246200005036 non-specific DNA interactions [nucleotide binding]; other site 246200005037 DNA binding site [nucleotide binding] 246200005038 sequence specific DNA binding site [nucleotide binding]; other site 246200005039 putative cAMP binding site [chemical binding]; other site 246200005040 LytTr DNA-binding domain; Region: LytTR; smart00850 246200005041 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 246200005042 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 246200005043 protein-splicing catalytic site; other site 246200005044 thioester formation/cholesterol transfer; other site 246200005045 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200005046 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 246200005047 TfoX C-terminal domain; Region: TfoX_C; pfam04994 246200005048 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 246200005049 Cytochrome P450; Region: p450; cl12078 246200005050 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 246200005051 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 246200005052 dimerization interface [polypeptide binding]; other site 246200005053 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 246200005054 dimer interface [polypeptide binding]; other site 246200005055 phosphorylation site [posttranslational modification] 246200005056 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 246200005057 ATP binding site [chemical binding]; other site 246200005058 Mg2+ binding site [ion binding]; other site 246200005059 G-X-G motif; other site 246200005060 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 246200005061 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 246200005062 active site 246200005063 phosphorylation site [posttranslational modification] 246200005064 intermolecular recognition site; other site 246200005065 dimerization interface [polypeptide binding]; other site 246200005066 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 246200005067 DNA binding site [nucleotide binding] 246200005068 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 246200005069 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 246200005070 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 246200005071 protein binding site [polypeptide binding]; other site 246200005072 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 246200005073 protein binding site [polypeptide binding]; other site 246200005074 Hint domain; Region: Hint_2; pfam13403 246200005075 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 246200005076 Ligand binding site; other site 246200005077 metal-binding site 246200005078 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200005079 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200005080 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200005081 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200005082 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 246200005083 Predicted membrane protein [Function unknown]; Region: COG4325 246200005084 BT1 family; Region: BT1; pfam03092 246200005085 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 246200005086 Domain of unknown function DUF21; Region: DUF21; pfam01595 246200005087 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 246200005088 Transporter associated domain; Region: CorC_HlyC; smart01091 246200005089 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 246200005090 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 246200005091 active site 246200005092 DNA binding site [nucleotide binding] 246200005093 Int/Topo IB signature motif; other site 246200005094 shikimate kinase; Provisional; Region: PRK13946 246200005095 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 246200005096 ADP binding site [chemical binding]; other site 246200005097 magnesium binding site [ion binding]; other site 246200005098 putative shikimate binding site; other site 246200005099 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 246200005100 active site 246200005101 dimer interface [polypeptide binding]; other site 246200005102 metal binding site [ion binding]; metal-binding site 246200005103 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 246200005104 Peptidase family M50; Region: Peptidase_M50; pfam02163 246200005105 active site 246200005106 putative substrate binding region [chemical binding]; other site 246200005107 FOG: CBS domain [General function prediction only]; Region: COG0517 246200005108 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 246200005109 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 246200005110 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 246200005111 dimer interface [polypeptide binding]; other site 246200005112 ssDNA binding site [nucleotide binding]; other site 246200005113 tetramer (dimer of dimers) interface [polypeptide binding]; other site 246200005114 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 246200005115 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 246200005116 N-acetyl-D-glucosamine binding site [chemical binding]; other site 246200005117 catalytic residue [active] 246200005118 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200005119 NAD(P) binding site [chemical binding]; other site 246200005120 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200005121 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200005122 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 246200005123 dimerization interface [polypeptide binding]; other site 246200005124 substrate binding pocket [chemical binding]; other site 246200005125 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 246200005126 Beta-lactamase; Region: Beta-lactamase; pfam00144 246200005127 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 246200005128 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 246200005129 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200005130 Walker A/P-loop; other site 246200005131 ATP binding site [chemical binding]; other site 246200005132 Q-loop/lid; other site 246200005133 ABC transporter signature motif; other site 246200005134 Walker B; other site 246200005135 D-loop; other site 246200005136 H-loop/switch region; other site 246200005137 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200005138 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200005139 Walker A/P-loop; other site 246200005140 ATP binding site [chemical binding]; other site 246200005141 Q-loop/lid; other site 246200005142 ABC transporter signature motif; other site 246200005143 Walker B; other site 246200005144 D-loop; other site 246200005145 H-loop/switch region; other site 246200005146 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 246200005147 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 246200005148 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 246200005149 dimer interface [polypeptide binding]; other site 246200005150 conserved gate region; other site 246200005151 ABC-ATPase subunit interface; other site 246200005152 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200005153 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 246200005154 dimer interface [polypeptide binding]; other site 246200005155 conserved gate region; other site 246200005156 putative PBP binding loops; other site 246200005157 ABC-ATPase subunit interface; other site 246200005158 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200005159 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 246200005160 putative dimethyl sulfoniopropionate demethylase; Reviewed; Region: dmdA; PRK12486 246200005161 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200005162 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 246200005163 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 246200005164 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 246200005165 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200005166 Walker A/P-loop; other site 246200005167 ATP binding site [chemical binding]; other site 246200005168 Q-loop/lid; other site 246200005169 ABC transporter signature motif; other site 246200005170 Walker B; other site 246200005171 D-loop; other site 246200005172 H-loop/switch region; other site 246200005173 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200005174 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200005175 Walker A/P-loop; other site 246200005176 ATP binding site [chemical binding]; other site 246200005177 Q-loop/lid; other site 246200005178 ABC transporter signature motif; other site 246200005179 Walker B; other site 246200005180 D-loop; other site 246200005181 H-loop/switch region; other site 246200005182 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200005183 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 246200005184 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 246200005185 conserved gate region; other site 246200005186 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200005187 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 246200005188 dimer interface [polypeptide binding]; other site 246200005189 conserved gate region; other site 246200005190 putative PBP binding loops; other site 246200005191 ABC-ATPase subunit interface; other site 246200005192 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200005193 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 246200005194 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 246200005195 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200005196 tRNA dimethylallyltransferase; Region: miaA; TIGR00174 246200005197 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cd02019 246200005198 active site 246200005199 adenylate isopentenyltransferase; Region: PLN02165 246200005200 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 246200005201 putative nucleotide binding site [chemical binding]; other site 246200005202 uridine monophosphate binding site [chemical binding]; other site 246200005203 homohexameric interface [polypeptide binding]; other site 246200005204 ribosome recycling factor; Reviewed; Region: frr; PRK00083 246200005205 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 246200005206 hinge region; other site 246200005207 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 246200005208 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 246200005209 catalytic residue [active] 246200005210 putative FPP diphosphate binding site; other site 246200005211 putative FPP binding hydrophobic cleft; other site 246200005212 dimer interface [polypeptide binding]; other site 246200005213 putative IPP diphosphate binding site; other site 246200005214 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 246200005215 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 246200005216 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 246200005217 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 246200005218 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 246200005219 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 246200005220 RIP metalloprotease RseP; Region: TIGR00054 246200005221 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 246200005222 active site 246200005223 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 246200005224 protein binding site [polypeptide binding]; other site 246200005225 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 246200005226 protein binding site [polypeptide binding]; other site 246200005227 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 246200005228 putative substrate binding region [chemical binding]; other site 246200005229 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 246200005230 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 246200005231 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 246200005232 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 246200005233 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 246200005234 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 246200005235 Surface antigen; Region: Bac_surface_Ag; pfam01103 246200005236 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 246200005237 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 246200005238 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 246200005239 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 246200005240 active site 246200005241 Protein of unknown function (DUF1009); Region: DUF1009; pfam06230 246200005242 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 246200005243 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 246200005244 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 246200005245 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 246200005246 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 246200005247 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 246200005248 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 246200005249 Ligand Binding Site [chemical binding]; other site 246200005250 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 246200005251 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 246200005252 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 246200005253 active site 246200005254 phosphorylation site [posttranslational modification] 246200005255 intermolecular recognition site; other site 246200005256 dimerization interface [polypeptide binding]; other site 246200005257 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 246200005258 DNA binding site [nucleotide binding] 246200005259 Ligase N family; Region: LIGANc; smart00532 246200005260 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 246200005261 nucleotide binding pocket [chemical binding]; other site 246200005262 K-X-D-G motif; other site 246200005263 catalytic site [active] 246200005264 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 246200005265 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 246200005266 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 246200005267 Dimer interface [polypeptide binding]; other site 246200005268 BRCT sequence motif; other site 246200005269 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 246200005270 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 246200005271 generic binding surface II; other site 246200005272 ssDNA binding site; other site 246200005273 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 246200005274 ATP binding site [chemical binding]; other site 246200005275 putative Mg++ binding site [ion binding]; other site 246200005276 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 246200005277 nucleotide binding region [chemical binding]; other site 246200005278 ATP-binding site [chemical binding]; other site 246200005279 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 246200005280 trimerization site [polypeptide binding]; other site 246200005281 active site 246200005282 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 246200005283 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 246200005284 active site 246200005285 HIGH motif; other site 246200005286 nucleotide binding site [chemical binding]; other site 246200005287 active site 246200005288 KMSKS motif; other site 246200005289 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 246200005290 Glucose inhibited division protein A; Region: GIDA; pfam01134 246200005291 enoyl-CoA hydratase; Validated; Region: PRK08139 246200005292 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 246200005293 substrate binding site [chemical binding]; other site 246200005294 oxyanion hole (OAH) forming residues; other site 246200005295 trimer interface [polypeptide binding]; other site 246200005296 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 246200005297 CoenzymeA binding site [chemical binding]; other site 246200005298 subunit interaction site [polypeptide binding]; other site 246200005299 PHB binding site; other site 246200005300 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 246200005301 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 246200005302 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200005303 DNA-binding site [nucleotide binding]; DNA binding site 246200005304 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 246200005305 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200005306 homodimer interface [polypeptide binding]; other site 246200005307 catalytic residue [active] 246200005308 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 246200005309 23S rRNA interface [nucleotide binding]; other site 246200005310 L3 interface [polypeptide binding]; other site 246200005311 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 246200005312 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200005313 Walker A/P-loop; other site 246200005314 ATP binding site [chemical binding]; other site 246200005315 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 246200005316 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 246200005317 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 246200005318 substrate binding site [chemical binding]; other site 246200005319 ATP binding site [chemical binding]; other site 246200005320 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 246200005321 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 246200005322 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 246200005323 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 246200005324 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 246200005325 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 246200005326 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 246200005327 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200005328 homodimer interface [polypeptide binding]; other site 246200005329 catalytic residue [active] 246200005330 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200005331 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 246200005332 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 246200005333 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 246200005334 NAD binding site [chemical binding]; other site 246200005335 ligand binding site [chemical binding]; other site 246200005336 catalytic site [active] 246200005337 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 246200005338 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 246200005339 inhibitor site; inhibition site 246200005340 active site 246200005341 dimer interface [polypeptide binding]; other site 246200005342 catalytic residue [active] 246200005343 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 246200005344 CoA-transferase family III; Region: CoA_transf_3; pfam02515 246200005345 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 246200005346 CoA-transferase family III; Region: CoA_transf_3; pfam02515 246200005347 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200005348 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 246200005349 conserved cys residue [active] 246200005350 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 246200005351 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 246200005352 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 246200005353 Walker A/P-loop; other site 246200005354 ATP binding site [chemical binding]; other site 246200005355 Q-loop/lid; other site 246200005356 ABC transporter signature motif; other site 246200005357 Walker B; other site 246200005358 D-loop; other site 246200005359 H-loop/switch region; other site 246200005360 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 246200005361 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 246200005362 Walker A/P-loop; other site 246200005363 ATP binding site [chemical binding]; other site 246200005364 Q-loop/lid; other site 246200005365 ABC transporter signature motif; other site 246200005366 Walker B; other site 246200005367 D-loop; other site 246200005368 H-loop/switch region; other site 246200005369 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 246200005370 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 246200005371 TM-ABC transporter signature motif; other site 246200005372 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 246200005373 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 246200005374 TM-ABC transporter signature motif; other site 246200005375 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 246200005376 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 246200005377 putative ligand binding site [chemical binding]; other site 246200005378 UreD urease accessory protein; Region: UreD; pfam01774 246200005379 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 246200005380 alpha-gamma subunit interface [polypeptide binding]; other site 246200005381 beta-gamma subunit interface [polypeptide binding]; other site 246200005382 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 246200005383 gamma-beta subunit interface [polypeptide binding]; other site 246200005384 alpha-beta subunit interface [polypeptide binding]; other site 246200005385 urease subunit alpha; Reviewed; Region: ureC; PRK13207 246200005386 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 246200005387 subunit interactions [polypeptide binding]; other site 246200005388 active site 246200005389 flap region; other site 246200005390 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 246200005391 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 246200005392 dimer interface [polypeptide binding]; other site 246200005393 catalytic residues [active] 246200005394 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 246200005395 UreF; Region: UreF; pfam01730 246200005396 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 246200005397 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 246200005398 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 246200005399 DNA-binding interface [nucleotide binding]; DNA binding site 246200005400 DctM-like transporters; Region: DctM; pfam06808 246200005401 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 246200005402 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 246200005403 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200005404 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 246200005405 Transcriptional regulators [Transcription]; Region: GntR; COG1802 246200005406 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200005407 DNA-binding site [nucleotide binding]; DNA binding site 246200005408 FCD domain; Region: FCD; pfam07729 246200005409 mannonate dehydratase; Provisional; Region: PRK03906 246200005410 mannonate dehydratase; Region: uxuA; TIGR00695 246200005411 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 246200005412 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 246200005413 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 246200005414 Methyltransferase FkbM domain; Region: Methyltransf_21; pfam05050 246200005415 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200005416 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200005417 WHG domain; Region: WHG; pfam13305 246200005418 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 246200005419 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 246200005420 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 246200005421 Homoserine O-succinyltransferase; Region: HTS; pfam04204 246200005422 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 246200005423 proposed active site lysine [active] 246200005424 conserved cys residue [active] 246200005425 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 246200005426 DHH family; Region: DHH; pfam01368 246200005427 DHHA1 domain; Region: DHHA1; pfam02272 246200005428 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 246200005429 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 246200005430 putative active site [active] 246200005431 homoserine dehydrogenase; Provisional; Region: PRK06349 246200005432 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 246200005433 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 246200005434 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 246200005435 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200005436 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200005437 Pirin-related protein [General function prediction only]; Region: COG1741 246200005438 Pirin; Region: Pirin; pfam02678 246200005439 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 246200005440 Reductive dehalogenase subunit; Region: Dehalogenase; pfam13486 246200005441 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 246200005442 TadE-like protein; Region: TadE; pfam07811 246200005443 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 246200005444 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 246200005445 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 246200005446 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 246200005447 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 246200005448 NAD(P) binding site [chemical binding]; other site 246200005449 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 246200005450 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200005451 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 246200005452 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 246200005453 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 246200005454 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 246200005455 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200005456 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 246200005457 DNA primase; Validated; Region: dnaG; PRK05667 246200005458 CHC2 zinc finger; Region: zf-CHC2; cl17510 246200005459 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 246200005460 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 246200005461 active site 246200005462 metal binding site [ion binding]; metal-binding site 246200005463 interdomain interaction site; other site 246200005464 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 246200005465 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 246200005466 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 246200005467 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 246200005468 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 246200005469 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 246200005470 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 246200005471 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 246200005472 DNA binding residues [nucleotide binding] 246200005473 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 246200005474 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 246200005475 ATP cone domain; Region: ATP-cone; pfam03477 246200005476 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 246200005477 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 246200005478 catalytic motif [active] 246200005479 Zn binding site [ion binding]; other site 246200005480 RibD C-terminal domain; Region: RibD_C; cl17279 246200005481 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 246200005482 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 246200005483 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 246200005484 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 246200005485 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 246200005486 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 246200005487 Lumazine binding domain; Region: Lum_binding; pfam00677 246200005488 Lumazine binding domain; Region: Lum_binding; pfam00677 246200005489 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 246200005490 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 246200005491 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 246200005492 dimerization interface [polypeptide binding]; other site 246200005493 active site 246200005494 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 246200005495 homopentamer interface [polypeptide binding]; other site 246200005496 active site 246200005497 transcription antitermination factor NusB; Region: nusB; TIGR01951 246200005498 putative RNA binding site [nucleotide binding]; other site 246200005499 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200005500 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 246200005501 DNA binding residues [nucleotide binding] 246200005502 dimerization interface [polypeptide binding]; other site 246200005503 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 246200005504 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 246200005505 DctM-like transporters; Region: DctM; pfam06808 246200005506 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 246200005507 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 246200005508 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200005509 3-hydroxyanthranilate 3,4-dioxygenase; Provisional; Region: PRK13264 246200005510 Transcriptional activator [Transcription]; Region: ChrR; COG3806 246200005511 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 246200005512 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 246200005513 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 246200005514 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 246200005515 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 246200005516 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 246200005517 homodimer interface [polypeptide binding]; other site 246200005518 active site 246200005519 FMN binding site [chemical binding]; other site 246200005520 substrate binding site [chemical binding]; other site 246200005521 4Fe-4S binding domain; Region: Fer4_6; pfam12837 246200005522 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200005523 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200005524 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200005525 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 246200005526 allantoate amidohydrolase; Reviewed; Region: PRK12893 246200005527 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 246200005528 active site 246200005529 metal binding site [ion binding]; metal-binding site 246200005530 dimer interface [polypeptide binding]; other site 246200005531 phenylhydantoinase; Validated; Region: PRK08323 246200005532 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 246200005533 tetramer interface [polypeptide binding]; other site 246200005534 active site 246200005535 Cupin domain; Region: Cupin_2; cl17218 246200005536 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 246200005537 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 246200005538 Walker A/P-loop; other site 246200005539 ATP binding site [chemical binding]; other site 246200005540 Q-loop/lid; other site 246200005541 ABC transporter signature motif; other site 246200005542 Walker B; other site 246200005543 D-loop; other site 246200005544 H-loop/switch region; other site 246200005545 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 246200005546 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 246200005547 dimer interface [polypeptide binding]; other site 246200005548 conserved gate region; other site 246200005549 putative PBP binding loops; other site 246200005550 ABC-ATPase subunit interface; other site 246200005551 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 246200005552 dimer interface [polypeptide binding]; other site 246200005553 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 246200005554 conserved gate region; other site 246200005555 putative PBP binding loops; other site 246200005556 ABC-ATPase subunit interface; other site 246200005557 NMT1/THI5 like; Region: NMT1; pfam09084 246200005558 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 246200005559 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 246200005560 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200005561 Walker A/P-loop; other site 246200005562 ATP binding site [chemical binding]; other site 246200005563 Q-loop/lid; other site 246200005564 ABC transporter signature motif; other site 246200005565 Walker B; other site 246200005566 D-loop; other site 246200005567 H-loop/switch region; other site 246200005568 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 246200005569 PBP superfamily domain; Region: PBP_like_2; pfam12849 246200005570 Helix-turn-helix domain; Region: HTH_17; pfam12728 246200005571 PBP superfamily domain; Region: PBP_like; pfam12727 246200005572 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 246200005573 FOG: WD40 repeat [General function prediction only]; Region: COG2319 246200005574 structural tetrad; other site 246200005575 Cytochrome c; Region: Cytochrom_C; cl11414 246200005576 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 246200005577 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 246200005578 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 246200005579 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 246200005580 [4Fe-4S] binding site [ion binding]; other site 246200005581 molybdopterin cofactor binding site; other site 246200005582 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 246200005583 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 246200005584 molybdopterin cofactor binding site; other site 246200005585 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 246200005586 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 246200005587 Ferredoxin [Energy production and conversion]; Region: COG1146 246200005588 Domain of unknown function DUF59; Region: DUF59; pfam01883 246200005589 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 246200005590 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 246200005591 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 246200005592 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 246200005593 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 246200005594 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 246200005595 active site 246200005596 catalytic site [active] 246200005597 substrate binding site [chemical binding]; other site 246200005598 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 246200005599 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 246200005600 ligand binding site [chemical binding]; other site 246200005601 flexible hinge region; other site 246200005602 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 246200005603 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 246200005604 metal binding triad; other site 246200005605 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 246200005606 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 246200005607 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 246200005608 Na binding site [ion binding]; other site 246200005609 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 246200005610 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 246200005611 adenylate kinase; Reviewed; Region: adk; PRK00279 246200005612 AMP-binding site [chemical binding]; other site 246200005613 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 246200005614 acetyl-CoA synthetase; Provisional; Region: PRK00174 246200005615 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 246200005616 active site 246200005617 CoA binding site [chemical binding]; other site 246200005618 acyl-activating enzyme (AAE) consensus motif; other site 246200005619 AMP binding site [chemical binding]; other site 246200005620 acetate binding site [chemical binding]; other site 246200005621 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200005622 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200005623 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 246200005624 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 246200005625 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 246200005626 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 246200005627 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 246200005628 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 246200005629 active site 246200005630 metal binding site [ion binding]; metal-binding site 246200005631 hexamer interface [polypeptide binding]; other site 246200005632 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 246200005633 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 246200005634 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 246200005635 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 246200005636 dimer interface [polypeptide binding]; other site 246200005637 conserved gate region; other site 246200005638 putative PBP binding loops; other site 246200005639 ABC-ATPase subunit interface; other site 246200005640 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 246200005641 putative PBP binding loops; other site 246200005642 ABC-ATPase subunit interface; other site 246200005643 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 246200005644 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 246200005645 Walker A/P-loop; other site 246200005646 ATP binding site [chemical binding]; other site 246200005647 Q-loop/lid; other site 246200005648 ABC transporter signature motif; other site 246200005649 Walker B; other site 246200005650 D-loop; other site 246200005651 H-loop/switch region; other site 246200005652 TOBE domain; Region: TOBE_2; pfam08402 246200005653 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200005654 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 246200005655 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 246200005656 dimerization interface [polypeptide binding]; other site 246200005657 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 246200005658 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 246200005659 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 246200005660 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 246200005661 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 246200005662 putative active site [active] 246200005663 N-formylglutamate amidohydrolase; Region: FGase; cl01522 246200005664 Isochorismatase family; Region: Isochorismatase; pfam00857 246200005665 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 246200005666 catalytic triad [active] 246200005667 conserved cis-peptide bond; other site 246200005668 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200005669 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 246200005670 Walker A/P-loop; other site 246200005671 ATP binding site [chemical binding]; other site 246200005672 Q-loop/lid; other site 246200005673 ABC transporter signature motif; other site 246200005674 Walker B; other site 246200005675 D-loop; other site 246200005676 H-loop/switch region; other site 246200005677 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 246200005678 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 246200005679 ligand binding site [chemical binding]; other site 246200005680 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200005681 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 246200005682 Walker A/P-loop; other site 246200005683 ATP binding site [chemical binding]; other site 246200005684 Q-loop/lid; other site 246200005685 ABC transporter signature motif; other site 246200005686 Walker B; other site 246200005687 D-loop; other site 246200005688 H-loop/switch region; other site 246200005689 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 246200005690 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 246200005691 TM-ABC transporter signature motif; other site 246200005692 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 246200005693 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 246200005694 TM-ABC transporter signature motif; other site 246200005695 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 246200005696 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 246200005697 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 246200005698 Walker A/P-loop; other site 246200005699 ATP binding site [chemical binding]; other site 246200005700 Q-loop/lid; other site 246200005701 ABC transporter signature motif; other site 246200005702 Walker B; other site 246200005703 D-loop; other site 246200005704 H-loop/switch region; other site 246200005705 TOBE domain; Region: TOBE_2; pfam08402 246200005706 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 246200005707 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 246200005708 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 246200005709 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 246200005710 dimer interface [polypeptide binding]; other site 246200005711 conserved gate region; other site 246200005712 putative PBP binding loops; other site 246200005713 ABC-ATPase subunit interface; other site 246200005714 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 246200005715 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 246200005716 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 246200005717 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 246200005718 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 246200005719 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 246200005720 putative active site [active] 246200005721 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 246200005722 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 246200005723 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200005724 DNA-binding site [nucleotide binding]; DNA binding site 246200005725 UTRA domain; Region: UTRA; pfam07702 246200005726 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 246200005727 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 246200005728 dimer interface [polypeptide binding]; other site 246200005729 active site 246200005730 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 246200005731 dimer interface [polypeptide binding]; other site 246200005732 active site 246200005733 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 246200005734 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 246200005735 active site 246200005736 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 246200005737 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 246200005738 putative [Fe4-S4] binding site [ion binding]; other site 246200005739 putative molybdopterin cofactor binding site [chemical binding]; other site 246200005740 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 246200005741 putative molybdopterin cofactor binding site; other site 246200005742 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 246200005743 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 246200005744 putative ligand binding site [chemical binding]; other site 246200005745 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 246200005746 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 246200005747 acyl-activating enzyme (AAE) consensus motif; other site 246200005748 putative AMP binding site [chemical binding]; other site 246200005749 putative active site [active] 246200005750 putative CoA binding site [chemical binding]; other site 246200005751 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200005752 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 246200005753 Walker A/P-loop; other site 246200005754 ATP binding site [chemical binding]; other site 246200005755 Q-loop/lid; other site 246200005756 ABC transporter signature motif; other site 246200005757 Walker B; other site 246200005758 D-loop; other site 246200005759 H-loop/switch region; other site 246200005760 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200005761 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 246200005762 Walker A/P-loop; other site 246200005763 ATP binding site [chemical binding]; other site 246200005764 Q-loop/lid; other site 246200005765 ABC transporter signature motif; other site 246200005766 Walker B; other site 246200005767 D-loop; other site 246200005768 H-loop/switch region; other site 246200005769 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 246200005770 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 246200005771 TM-ABC transporter signature motif; other site 246200005772 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 246200005773 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 246200005774 TM-ABC transporter signature motif; other site 246200005775 2-enoyl thioester reductase (ETR) like proteins, child 1; Region: ETR_like_1; cd08291 246200005776 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 246200005777 NADP binding site [chemical binding]; other site 246200005778 dimer interface [polypeptide binding]; other site 246200005779 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200005780 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200005781 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 246200005782 exonuclease VIII; Reviewed; Region: PRK09709 246200005783 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 246200005784 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 246200005785 S-adenosylmethionine binding site [chemical binding]; other site 246200005786 exopolyphosphatase; Region: exo_poly_only; TIGR03706 246200005787 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 246200005788 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 246200005789 Virulence factor; Region: Virulence_fact; pfam13769 246200005790 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 246200005791 FAD binding site [chemical binding]; other site 246200005792 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 246200005793 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated; Region: PRK07535 246200005794 substrate binding pocket [chemical binding]; other site 246200005795 dimer interface [polypeptide binding]; other site 246200005796 inhibitor binding site; inhibition site 246200005797 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 246200005798 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 246200005799 TPP-binding site [chemical binding]; other site 246200005800 dimer interface [polypeptide binding]; other site 246200005801 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 246200005802 PYR/PP interface [polypeptide binding]; other site 246200005803 dimer interface [polypeptide binding]; other site 246200005804 TPP binding site [chemical binding]; other site 246200005805 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 246200005806 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 246200005807 Cell division protein ZapA; Region: ZapA; pfam05164 246200005808 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 246200005809 putative GSH binding site [chemical binding]; other site 246200005810 catalytic residues [active] 246200005811 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 246200005812 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 246200005813 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 246200005814 dimerization interface [polypeptide binding]; other site 246200005815 ATP binding site [chemical binding]; other site 246200005816 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 246200005817 dimerization interface [polypeptide binding]; other site 246200005818 ATP binding site [chemical binding]; other site 246200005819 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 246200005820 Mechanosensitive ion channel; Region: MS_channel; pfam00924 246200005821 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200005822 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200005823 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 246200005824 putative effector binding pocket; other site 246200005825 dimerization interface [polypeptide binding]; other site 246200005826 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 246200005827 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 246200005828 dimer interface [polypeptide binding]; other site 246200005829 PYR/PP interface [polypeptide binding]; other site 246200005830 TPP binding site [chemical binding]; other site 246200005831 substrate binding site [chemical binding]; other site 246200005832 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 246200005833 TPP-binding site [chemical binding]; other site 246200005834 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 246200005835 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 246200005836 putative acyl-acceptor binding pocket; other site 246200005837 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200005838 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 246200005839 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 246200005840 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 246200005841 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 246200005842 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 246200005843 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 246200005844 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 246200005845 enoyl-CoA hydratase; Provisional; Region: PRK08140 246200005846 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 246200005847 substrate binding site [chemical binding]; other site 246200005848 oxyanion hole (OAH) forming residues; other site 246200005849 trimer interface [polypeptide binding]; other site 246200005850 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 246200005851 methionine synthase I; Validated; Region: PRK07534 246200005852 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 246200005853 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 246200005854 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 246200005855 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 246200005856 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 246200005857 ATP binding site [chemical binding]; other site 246200005858 active site 246200005859 substrate binding site [chemical binding]; other site 246200005860 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 246200005861 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 246200005862 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 246200005863 putative NAD(P) binding site [chemical binding]; other site 246200005864 catalytic Zn binding site [ion binding]; other site 246200005865 structural Zn binding site [ion binding]; other site 246200005866 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 246200005867 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 246200005868 putative active site [active] 246200005869 catalytic triad [active] 246200005870 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 246200005871 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 246200005872 dimer interface [polypeptide binding]; other site 246200005873 phosphorylation site [posttranslational modification] 246200005874 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 246200005875 ATP binding site [chemical binding]; other site 246200005876 Mg2+ binding site [ion binding]; other site 246200005877 G-X-G motif; other site 246200005878 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 246200005879 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 246200005880 active site 246200005881 phosphorylation site [posttranslational modification] 246200005882 intermolecular recognition site; other site 246200005883 dimerization interface [polypeptide binding]; other site 246200005884 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 246200005885 Walker A motif; other site 246200005886 ATP binding site [chemical binding]; other site 246200005887 Walker B motif; other site 246200005888 arginine finger; other site 246200005889 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 246200005890 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 246200005891 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 246200005892 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 246200005893 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 246200005894 CPxP motif; other site 246200005895 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 246200005896 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; pfam02683 246200005897 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 246200005898 Cytochrome P450; Region: p450; cl12078 246200005899 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 246200005900 catalytic residue [active] 246200005901 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 246200005902 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200005903 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200005904 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 246200005905 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 246200005906 fumarate hydratase; Reviewed; Region: fumC; PRK00485 246200005907 Class II fumarases; Region: Fumarase_classII; cd01362 246200005908 active site 246200005909 tetramer interface [polypeptide binding]; other site 246200005910 Stringent starvation protein B; Region: SspB; pfam04386 246200005911 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 246200005912 Chromate transporter; Region: Chromate_transp; pfam02417 246200005913 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 246200005914 SnoaL-like domain; Region: SnoaL_3; pfam13474 246200005915 Transcriptional regulators [Transcription]; Region: FadR; COG2186 246200005916 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200005917 DNA-binding site [nucleotide binding]; DNA binding site 246200005918 FCD domain; Region: FCD; pfam07729 246200005919 putative dimethyl sulfoniopropionate demethylase; Reviewed; Region: dmdA; PRK12486 246200005920 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200005921 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 246200005922 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 246200005923 NADP binding site [chemical binding]; other site 246200005924 dimer interface [polypeptide binding]; other site 246200005925 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 246200005926 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200005927 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 246200005928 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 246200005929 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200005930 catalytic residue [active] 246200005931 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 246200005932 DNA photolyase; Region: DNA_photolyase; pfam00875 246200005933 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 246200005934 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 246200005935 S-adenosylmethionine binding site [chemical binding]; other site 246200005936 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 246200005937 putative active site pocket [active] 246200005938 dimerization interface [polypeptide binding]; other site 246200005939 putative catalytic residue [active] 246200005940 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 246200005941 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 246200005942 dimer interface [polypeptide binding]; other site 246200005943 active site 246200005944 ADP-ribose binding site [chemical binding]; other site 246200005945 nudix motif; other site 246200005946 metal binding site [ion binding]; metal-binding site 246200005947 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 246200005948 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 246200005949 dimer interface [polypeptide binding]; other site 246200005950 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200005951 catalytic residue [active] 246200005952 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 246200005953 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 246200005954 Mechanosensitive ion channel; Region: MS_channel; pfam00924 246200005955 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 246200005956 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 246200005957 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 246200005958 Methyltransferase domain; Region: Methyltransf_26; pfam13659 246200005959 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 246200005960 integrase; Provisional; Region: PRK09692 246200005961 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 246200005962 active site 246200005963 Int/Topo IB signature motif; other site 246200005964 Peptidase M15; Region: Peptidase_M15_3; cl01194 246200005965 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 246200005966 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 246200005967 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 246200005968 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 246200005969 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 246200005970 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 246200005971 trimer interface [polypeptide binding]; other site 246200005972 active site 246200005973 UDP-GlcNAc binding site [chemical binding]; other site 246200005974 lipid binding site [chemical binding]; lipid-binding site 246200005975 acyl carrier protein; Provisional; Region: acpP; PRK00982 246200005976 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 246200005977 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 246200005978 dimer interface [polypeptide binding]; other site 246200005979 active site 246200005980 Invasion associated locus B (IalB) protein; Region: IalB; pfam06776 246200005981 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 246200005982 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 246200005983 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 246200005984 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 246200005985 TM-ABC transporter signature motif; other site 246200005986 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 246200005987 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 246200005988 TM-ABC transporter signature motif; other site 246200005989 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200005990 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 246200005991 Walker A/P-loop; other site 246200005992 ATP binding site [chemical binding]; other site 246200005993 Q-loop/lid; other site 246200005994 ABC transporter signature motif; other site 246200005995 Walker B; other site 246200005996 D-loop; other site 246200005997 H-loop/switch region; other site 246200005998 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200005999 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 246200006000 Walker A/P-loop; other site 246200006001 ATP binding site [chemical binding]; other site 246200006002 Q-loop/lid; other site 246200006003 ABC transporter signature motif; other site 246200006004 Walker B; other site 246200006005 D-loop; other site 246200006006 H-loop/switch region; other site 246200006007 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 246200006008 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 246200006009 putative ligand binding site [chemical binding]; other site 246200006010 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 246200006011 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 246200006012 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200006013 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 246200006014 conserved cys residue [active] 246200006015 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200006016 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 246200006017 PAS domain; Region: PAS_5; pfam07310 246200006018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 246200006019 hypothetical protein; Provisional; Region: PRK11820 246200006020 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 246200006021 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 246200006022 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 246200006023 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 246200006024 catalytic site [active] 246200006025 G-X2-G-X-G-K; other site 246200006026 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 246200006027 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 246200006028 trimer interface [polypeptide binding]; other site 246200006029 putative metal binding site [ion binding]; other site 246200006030 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 246200006031 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 246200006032 dimer interface [polypeptide binding]; other site 246200006033 phosphorylation site [posttranslational modification] 246200006034 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 246200006035 ATP binding site [chemical binding]; other site 246200006036 Mg2+ binding site [ion binding]; other site 246200006037 G-X-G motif; other site 246200006038 PBP superfamily domain; Region: PBP_like_2; pfam12849 246200006039 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 246200006040 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 246200006041 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 246200006042 dimer interface [polypeptide binding]; other site 246200006043 conserved gate region; other site 246200006044 putative PBP binding loops; other site 246200006045 ABC-ATPase subunit interface; other site 246200006046 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 246200006047 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 246200006048 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 246200006049 dimer interface [polypeptide binding]; other site 246200006050 conserved gate region; other site 246200006051 putative PBP binding loops; other site 246200006052 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 246200006053 ABC-ATPase subunit interface; other site 246200006054 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 246200006055 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 246200006056 Walker A/P-loop; other site 246200006057 ATP binding site [chemical binding]; other site 246200006058 Q-loop/lid; other site 246200006059 ABC transporter signature motif; other site 246200006060 Walker B; other site 246200006061 D-loop; other site 246200006062 H-loop/switch region; other site 246200006063 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 246200006064 PhoU domain; Region: PhoU; pfam01895 246200006065 PhoU domain; Region: PhoU; pfam01895 246200006066 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 246200006067 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 246200006068 active site 246200006069 phosphorylation site [posttranslational modification] 246200006070 intermolecular recognition site; other site 246200006071 dimerization interface [polypeptide binding]; other site 246200006072 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 246200006073 DNA binding site [nucleotide binding] 246200006074 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200006075 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200006076 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 246200006077 dimerization interface [polypeptide binding]; other site 246200006078 substrate binding pocket [chemical binding]; other site 246200006079 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 246200006080 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200006081 FAD binding site [chemical binding]; other site 246200006082 substrate binding pocket [chemical binding]; other site 246200006083 catalytic base [active] 246200006084 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 246200006085 high affinity sulphate transporter 1; Region: sulP; TIGR00815 246200006086 Sulfate transporter family; Region: Sulfate_transp; pfam00916 246200006087 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 246200006088 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 246200006089 classical (c) SDRs; Region: SDR_c; cd05233 246200006090 NAD(P) binding site [chemical binding]; other site 246200006091 active site 246200006092 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 246200006093 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 246200006094 active site 246200006095 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 246200006096 catalytic triad [active] 246200006097 dimer interface [polypeptide binding]; other site 246200006098 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 246200006099 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 246200006100 acyl-activating enzyme (AAE) consensus motif; other site 246200006101 AMP binding site [chemical binding]; other site 246200006102 active site 246200006103 CoA binding site [chemical binding]; other site 246200006104 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 246200006105 Beta-lactamase; Region: Beta-lactamase; pfam00144 246200006106 Transcriptional regulator [Transcription]; Region: IclR; COG1414 246200006107 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 246200006108 Bacterial transcriptional regulator; Region: IclR; pfam01614 246200006109 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 246200006110 Phosphotransferase enzyme family; Region: APH; pfam01636 246200006111 putative active site [active] 246200006112 putative substrate binding site [chemical binding]; other site 246200006113 ATP binding site [chemical binding]; other site 246200006114 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 246200006115 catalytic core [active] 246200006116 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 246200006117 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 246200006118 FMN binding site [chemical binding]; other site 246200006119 substrate binding site [chemical binding]; other site 246200006120 putative catalytic residue [active] 246200006121 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 246200006122 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006123 NAD(P) binding site [chemical binding]; other site 246200006124 active site 246200006125 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 246200006126 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006127 NAD(P) binding site [chemical binding]; other site 246200006128 active site 246200006129 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 246200006130 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 246200006131 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 246200006132 active site 246200006133 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200006134 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 246200006135 active site 246200006136 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 246200006137 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 246200006138 NAD(P) binding site [chemical binding]; other site 246200006139 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 246200006140 catalytic core [active] 246200006141 enoyl-CoA hydratase; Provisional; Region: PRK06688 246200006142 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 246200006143 substrate binding site [chemical binding]; other site 246200006144 oxyanion hole (OAH) forming residues; other site 246200006145 trimer interface [polypeptide binding]; other site 246200006146 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 246200006147 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 246200006148 putative active site [active] 246200006149 putative catalytic site [active] 246200006150 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 246200006151 Dehydroquinase class II; Region: DHquinase_II; pfam01220 246200006152 trimer interface [polypeptide binding]; other site 246200006153 active site 246200006154 dimer interface [polypeptide binding]; other site 246200006155 Autoinducer binding domain; Region: Autoind_bind; pfam03472 246200006156 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 246200006157 DNA binding residues [nucleotide binding] 246200006158 dimerization interface [polypeptide binding]; other site 246200006159 elongation factor Ts; Provisional; Region: tsf; PRK09377 246200006160 UBA/TS-N domain; Region: UBA; pfam00627 246200006161 Elongation factor TS; Region: EF_TS; pfam00889 246200006162 Elongation factor TS; Region: EF_TS; pfam00889 246200006163 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 246200006164 rRNA interaction site [nucleotide binding]; other site 246200006165 S8 interaction site; other site 246200006166 putative laminin-1 binding site; other site 246200006167 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 246200006168 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 246200006169 putative acyl-acceptor binding pocket; other site 246200006170 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 246200006171 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 246200006172 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 246200006173 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 246200006174 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 246200006175 putative catalytic cysteine [active] 246200006176 gamma-glutamyl kinase; Provisional; Region: PRK05429 246200006177 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 246200006178 nucleotide binding site [chemical binding]; other site 246200006179 homotetrameric interface [polypeptide binding]; other site 246200006180 putative phosphate binding site [ion binding]; other site 246200006181 putative allosteric binding site; other site 246200006182 PUA domain; Region: PUA; pfam01472 246200006183 GTPase CgtA; Reviewed; Region: obgE; PRK12299 246200006184 GTP1/OBG; Region: GTP1_OBG; pfam01018 246200006185 Obg GTPase; Region: Obg; cd01898 246200006186 G1 box; other site 246200006187 GTP/Mg2+ binding site [chemical binding]; other site 246200006188 Switch I region; other site 246200006189 G2 box; other site 246200006190 G3 box; other site 246200006191 Switch II region; other site 246200006192 G4 box; other site 246200006193 G5 box; other site 246200006194 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 246200006195 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 246200006196 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 246200006197 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 246200006198 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 246200006199 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 246200006200 Uncharacterized conserved protein [Function unknown]; Region: COG3743 246200006201 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 246200006202 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 246200006203 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 246200006204 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 246200006205 HlyD family secretion protein; Region: HlyD_3; pfam13437 246200006206 type I secretion system ABC transporter, PrtD family; Region: type_I_sec_PrtD; TIGR01842 246200006207 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200006208 Walker A/P-loop; other site 246200006209 ATP binding site [chemical binding]; other site 246200006210 Q-loop/lid; other site 246200006211 ABC transporter signature motif; other site 246200006212 Walker B; other site 246200006213 D-loop; other site 246200006214 H-loop/switch region; other site 246200006215 conserved hypothetical protein; Region: TIGR02466 246200006216 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 246200006217 Zn binding site [ion binding]; other site 246200006218 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 246200006219 homotrimer interaction site [polypeptide binding]; other site 246200006220 putative active site [active] 246200006221 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200006222 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 246200006223 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 246200006224 active site 246200006225 Zn binding site [ion binding]; other site 246200006226 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 246200006227 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 246200006228 Coenzyme A binding pocket [chemical binding]; other site 246200006229 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 246200006230 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 246200006231 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 246200006232 inhibitor-cofactor binding pocket; inhibition site 246200006233 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200006234 catalytic residue [active] 246200006235 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 246200006236 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200006237 Walker A/P-loop; other site 246200006238 ATP binding site [chemical binding]; other site 246200006239 Q-loop/lid; other site 246200006240 ABC transporter signature motif; other site 246200006241 Walker B; other site 246200006242 D-loop; other site 246200006243 H-loop/switch region; other site 246200006244 TOBE domain; Region: TOBE_2; pfam08402 246200006245 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 246200006246 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 246200006247 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 246200006248 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 246200006249 dimer interface [polypeptide binding]; other site 246200006250 conserved gate region; other site 246200006251 putative PBP binding loops; other site 246200006252 ABC-ATPase subunit interface; other site 246200006253 ABC-type spermidine/putrescine transport system, permease component I [Amino acid transport and metabolism]; Region: PotB; COG1176 246200006254 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200006255 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200006256 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 246200006257 dimerization interface [polypeptide binding]; other site 246200006258 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 246200006259 S-adenosylmethionine binding site [chemical binding]; other site 246200006260 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 246200006261 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 246200006262 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200006263 catalytic residue [active] 246200006264 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 246200006265 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 246200006266 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 246200006267 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 246200006268 Walker A/P-loop; other site 246200006269 ATP binding site [chemical binding]; other site 246200006270 Q-loop/lid; other site 246200006271 ABC transporter signature motif; other site 246200006272 Walker B; other site 246200006273 D-loop; other site 246200006274 H-loop/switch region; other site 246200006275 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 246200006276 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 246200006277 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 246200006278 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 246200006279 S-adenosylmethionine binding site [chemical binding]; other site 246200006280 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 246200006281 putative ABC transporter; Region: ycf24; CHL00085 246200006282 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 246200006283 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 246200006284 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200006285 catalytic residue [active] 246200006286 Transcriptional regulator; Region: Rrf2; cl17282 246200006287 Rrf2 family protein; Region: rrf2_super; TIGR00738 246200006288 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 246200006289 HD domain; Region: HD_3; pfam13023 246200006290 HD domain; Region: HD_3; pfam13023 246200006291 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 246200006292 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 246200006293 putative active site [active] 246200006294 putative dimer interface [polypeptide binding]; other site 246200006295 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 246200006296 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 246200006297 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 246200006298 G1 box; other site 246200006299 putative GEF interaction site [polypeptide binding]; other site 246200006300 GTP/Mg2+ binding site [chemical binding]; other site 246200006301 Switch I region; other site 246200006302 G2 box; other site 246200006303 G3 box; other site 246200006304 Switch II region; other site 246200006305 G4 box; other site 246200006306 G5 box; other site 246200006307 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 246200006308 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 246200006309 Uncharacterized conserved protein [Function unknown]; Region: COG5470 246200006310 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 246200006311 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 246200006312 motif 1; other site 246200006313 active site 246200006314 motif 2; other site 246200006315 motif 3; other site 246200006316 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 246200006317 recombinase A; Provisional; Region: recA; PRK09354 246200006318 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 246200006319 hexamer interface [polypeptide binding]; other site 246200006320 Walker A motif; other site 246200006321 ATP binding site [chemical binding]; other site 246200006322 Walker B motif; other site 246200006323 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 246200006324 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 246200006325 putative active site [active] 246200006326 heme pocket [chemical binding]; other site 246200006327 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 246200006328 dimer interface [polypeptide binding]; other site 246200006329 phosphorylation site [posttranslational modification] 246200006330 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 246200006331 ATP binding site [chemical binding]; other site 246200006332 Mg2+ binding site [ion binding]; other site 246200006333 G-X-G motif; other site 246200006334 Response regulator receiver domain; Region: Response_reg; pfam00072 246200006335 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 246200006336 active site 246200006337 phosphorylation site [posttranslational modification] 246200006338 intermolecular recognition site; other site 246200006339 dimerization interface [polypeptide binding]; other site 246200006340 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 246200006341 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 246200006342 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 246200006343 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 246200006344 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 246200006345 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 246200006346 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 246200006347 active site 246200006348 putative CoA-transferase; Provisional; Region: PRK11430 246200006349 CoA-transferase family III; Region: CoA_transf_3; pfam02515 246200006350 Uncharacterized metal-binding protein [General function prediction only]; Region: COG3894 246200006351 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 246200006352 catalytic loop [active] 246200006353 iron binding site [ion binding]; other site 246200006354 hypothetical protein; Provisional; Region: PRK08317 246200006355 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 246200006356 S-adenosylmethionine binding site [chemical binding]; other site 246200006357 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 246200006358 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 246200006359 dimer interface [polypeptide binding]; other site 246200006360 acyl-activating enzyme (AAE) consensus motif; other site 246200006361 putative active site [active] 246200006362 AMP binding site [chemical binding]; other site 246200006363 putative CoA binding site [chemical binding]; other site 246200006364 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 246200006365 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 246200006366 active site 246200006367 dimer interface [polypeptide binding]; other site 246200006368 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 246200006369 dimer interface [polypeptide binding]; other site 246200006370 active site 246200006371 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 246200006372 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 246200006373 putative active site [active] 246200006374 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 246200006375 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 246200006376 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 246200006377 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 246200006378 FeS/SAM binding site; other site 246200006379 Usg-like family; Region: Usg; pfam06233 246200006380 DNA gyrase subunit A; Validated; Region: PRK05560 246200006381 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 246200006382 CAP-like domain; other site 246200006383 active site 246200006384 primary dimer interface [polypeptide binding]; other site 246200006385 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 246200006386 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 246200006387 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 246200006388 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 246200006389 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 246200006390 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 246200006391 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 246200006392 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 246200006393 active site 246200006394 Zn binding site [ion binding]; other site 246200006395 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 246200006396 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 246200006397 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 246200006398 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 246200006399 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 246200006400 thiamine phosphate binding site [chemical binding]; other site 246200006401 active site 246200006402 pyrophosphate binding site [ion binding]; other site 246200006403 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 246200006404 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 246200006405 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200006406 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 246200006407 C-terminal domain interface [polypeptide binding]; other site 246200006408 GSH binding site (G-site) [chemical binding]; other site 246200006409 dimer interface [polypeptide binding]; other site 246200006410 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 246200006411 N-terminal domain interface [polypeptide binding]; other site 246200006412 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 246200006413 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 246200006414 substrate binding site [chemical binding]; other site 246200006415 ATP binding site [chemical binding]; other site 246200006416 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 246200006417 Uncharacterized conserved protein [Function unknown]; Region: COG2928 246200006418 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 246200006419 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 246200006420 active site 246200006421 nucleophile elbow; other site 246200006422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200006423 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 246200006424 NAD(P) binding site [chemical binding]; other site 246200006425 active site 246200006426 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 246200006427 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 246200006428 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 246200006429 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 246200006430 non-specific DNA binding site [nucleotide binding]; other site 246200006431 salt bridge; other site 246200006432 sequence-specific DNA binding site [nucleotide binding]; other site 246200006433 Cupin domain; Region: Cupin_2; pfam07883 246200006434 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 246200006435 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 246200006436 acyl-activating enzyme (AAE) consensus motif; other site 246200006437 AMP binding site [chemical binding]; other site 246200006438 active site 246200006439 CoA binding site [chemical binding]; other site 246200006440 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 246200006441 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 246200006442 catalytic residues [active] 246200006443 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 246200006444 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 246200006445 putative substrate translocation pore; other site 246200006446 TPR repeat; Region: TPR_11; pfam13414 246200006447 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 246200006448 binding surface 246200006449 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 246200006450 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 246200006451 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 246200006452 ATP binding site [chemical binding]; other site 246200006453 putative Mg++ binding site [ion binding]; other site 246200006454 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 246200006455 nucleotide binding region [chemical binding]; other site 246200006456 ATP-binding site [chemical binding]; other site 246200006457 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 246200006458 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 246200006459 dimer interface [polypeptide binding]; other site 246200006460 active site 246200006461 aspartate-rich active site metal binding site; other site 246200006462 allosteric magnesium binding site [ion binding]; other site 246200006463 Schiff base residues; other site 246200006464 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 246200006465 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 246200006466 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 246200006467 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 246200006468 active site 246200006469 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 246200006470 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 246200006471 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 246200006472 HflX GTPase family; Region: HflX; cd01878 246200006473 G1 box; other site 246200006474 GTP/Mg2+ binding site [chemical binding]; other site 246200006475 Switch I region; other site 246200006476 G2 box; other site 246200006477 G3 box; other site 246200006478 Switch II region; other site 246200006479 G4 box; other site 246200006480 G5 box; other site 246200006481 bacterial Hfq-like; Region: Hfq; cd01716 246200006482 hexamer interface [polypeptide binding]; other site 246200006483 Sm1 motif; other site 246200006484 RNA binding site [nucleotide binding]; other site 246200006485 Sm2 motif; other site 246200006486 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 246200006487 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 246200006488 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 246200006489 TrkA-N domain; Region: TrkA_N; pfam02254 246200006490 TrkA-C domain; Region: TrkA_C; pfam02080 246200006491 TrkA-N domain; Region: TrkA_N; pfam02254 246200006492 TrkA-C domain; Region: TrkA_C; pfam02080 246200006493 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 246200006494 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 246200006495 active site 246200006496 phosphorylation site [posttranslational modification] 246200006497 intermolecular recognition site; other site 246200006498 dimerization interface [polypeptide binding]; other site 246200006499 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 246200006500 Walker A motif; other site 246200006501 ATP binding site [chemical binding]; other site 246200006502 Walker B motif; other site 246200006503 arginine finger; other site 246200006504 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 246200006505 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 246200006506 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 246200006507 dimerization interface [polypeptide binding]; other site 246200006508 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 246200006509 putative active site [active] 246200006510 heme pocket [chemical binding]; other site 246200006511 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 246200006512 dimer interface [polypeptide binding]; other site 246200006513 phosphorylation site [posttranslational modification] 246200006514 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 246200006515 ATP binding site [chemical binding]; other site 246200006516 Mg2+ binding site [ion binding]; other site 246200006517 G-X-G motif; other site 246200006518 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 246200006519 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 246200006520 active site 246200006521 phosphorylation site [posttranslational modification] 246200006522 intermolecular recognition site; other site 246200006523 dimerization interface [polypeptide binding]; other site 246200006524 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 246200006525 Walker A motif; other site 246200006526 ATP binding site [chemical binding]; other site 246200006527 Walker B motif; other site 246200006528 arginine finger; other site 246200006529 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 246200006530 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 246200006531 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 246200006532 putative active site [active] 246200006533 heme pocket [chemical binding]; other site 246200006534 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 246200006535 dimer interface [polypeptide binding]; other site 246200006536 phosphorylation site [posttranslational modification] 246200006537 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 246200006538 ATP binding site [chemical binding]; other site 246200006539 G-X-G motif; other site 246200006540 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 246200006541 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 246200006542 FMN binding site [chemical binding]; other site 246200006543 active site 246200006544 catalytic residues [active] 246200006545 substrate binding site [chemical binding]; other site 246200006546 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 246200006547 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 246200006548 substrate binding site; other site 246200006549 dimer interface; other site 246200006550 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 246200006551 homotrimer interaction site [polypeptide binding]; other site 246200006552 zinc binding site [ion binding]; other site 246200006553 CDP-binding sites; other site 246200006554 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 246200006555 tetramer interfaces [polypeptide binding]; other site 246200006556 binuclear metal-binding site [ion binding]; other site 246200006557 Competence-damaged protein; Region: CinA; pfam02464 246200006558 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 246200006559 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 246200006560 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 246200006561 Coenzyme A binding pocket [chemical binding]; other site 246200006562 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 246200006563 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 246200006564 putative coenzyme Q binding site [chemical binding]; other site 246200006565 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 246200006566 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 246200006567 active site 246200006568 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200006569 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200006570 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 246200006571 dimerization interface [polypeptide binding]; other site 246200006572 Cytochrome C' Region: Cytochrom_C_2; pfam01322 246200006573 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 246200006574 Cytochrome c; Region: Cytochrom_C; pfam00034 246200006575 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 246200006576 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like3; cd05668 246200006577 metal binding site [ion binding]; metal-binding site 246200006578 putative dimer interface [polypeptide binding]; other site 246200006579 lipoyl synthase; Provisional; Region: PRK05481 246200006580 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 246200006581 FeS/SAM binding site; other site 246200006582 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 246200006583 catalytic triad [active] 246200006584 dimer interface [polypeptide binding]; other site 246200006585 Cupin domain; Region: Cupin_2; cl17218 246200006586 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 246200006587 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200006588 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 246200006589 dimerization interface [polypeptide binding]; other site 246200006590 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 246200006591 GMP synthase; Reviewed; Region: guaA; PRK00074 246200006592 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 246200006593 AMP/PPi binding site [chemical binding]; other site 246200006594 candidate oxyanion hole; other site 246200006595 catalytic triad [active] 246200006596 potential glutamine specificity residues [chemical binding]; other site 246200006597 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 246200006598 ATP Binding subdomain [chemical binding]; other site 246200006599 Ligand Binding sites [chemical binding]; other site 246200006600 Dimerization subdomain; other site 246200006601 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 246200006602 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 246200006603 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200006604 EamA-like transporter family; Region: EamA; pfam00892 246200006605 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 246200006606 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 246200006607 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200006608 AsnC family; Region: AsnC_trans_reg; pfam01037 246200006609 agmatinase; Region: agmatinase; TIGR01230 246200006610 Arginase family; Region: Arginase; cd09989 246200006611 active site 246200006612 Mn binding site [ion binding]; other site 246200006613 oligomer interface [polypeptide binding]; other site 246200006614 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 246200006615 Amidinotransferase; Region: Amidinotransf; pfam02274 246200006616 ornithine cyclodeaminase; Validated; Region: PRK07589 246200006617 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 246200006618 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 246200006619 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 246200006620 PhnA protein; Region: PhnA; pfam03831 246200006621 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 246200006622 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 246200006623 active site 246200006624 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 246200006625 pseudouridine synthase; Region: TIGR00093 246200006626 active site 246200006627 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 246200006628 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 246200006629 Predicted esterase [General function prediction only]; Region: COG0400 246200006630 putative hydrolase; Provisional; Region: PRK11460 246200006631 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 246200006632 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 246200006633 helix-hairpin-helix signature motif; other site 246200006634 substrate binding pocket [chemical binding]; other site 246200006635 active site 246200006636 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200006637 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 246200006638 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 246200006639 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 246200006640 active site 246200006641 catalytic residues [active] 246200006642 metal binding site [ion binding]; metal-binding site 246200006643 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 246200006644 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 246200006645 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 246200006646 active site 246200006647 HIGH motif; other site 246200006648 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 246200006649 KMSKS motif; other site 246200006650 This DALR domain is found in cysteinyl-tRNA-synthetases; Region: DALR_2; smart00840 246200006651 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 246200006652 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 246200006653 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200006654 homodimer interface [polypeptide binding]; other site 246200006655 catalytic residue [active] 246200006656 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 246200006657 Trimethylamine:corrinoid methyltransferase [Coenzyme metabolism]; Region: COG5598 246200006658 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 246200006659 Ca2+ binding site [ion binding]; other site 246200006660 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 246200006661 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 246200006662 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 246200006663 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 246200006664 active site 246200006665 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 246200006666 TSCPD domain; Region: TSCPD; pfam12637 246200006667 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 246200006668 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 246200006669 DNA-binding site [nucleotide binding]; DNA binding site 246200006670 RNA-binding motif; other site 246200006671 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 246200006672 DNA-binding site [nucleotide binding]; DNA binding site 246200006673 RNA-binding motif; other site 246200006674 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 246200006675 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 246200006676 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 246200006677 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 246200006678 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 246200006679 NAD binding site [chemical binding]; other site 246200006680 homotetramer interface [polypeptide binding]; other site 246200006681 homodimer interface [polypeptide binding]; other site 246200006682 substrate binding site [chemical binding]; other site 246200006683 active site 246200006684 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 246200006685 active site 246200006686 hypothetical protein; Provisional; Region: PRK07550 246200006687 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 246200006688 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200006689 homodimer interface [polypeptide binding]; other site 246200006690 catalytic residue [active] 246200006691 SurA N-terminal domain; Region: SurA_N_3; cl07813 246200006692 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 246200006693 anthranilate synthase component I; Provisional; Region: PRK13573 246200006694 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 246200006695 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 246200006696 HutD; Region: HutD; pfam05962 246200006697 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 246200006698 NodB motif; other site 246200006699 putative active site [active] 246200006700 putative catalytic site [active] 246200006701 Zn binding site [ion binding]; other site 246200006702 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 246200006703 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 246200006704 glutamine binding [chemical binding]; other site 246200006705 catalytic triad [active] 246200006706 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 246200006707 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 246200006708 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 246200006709 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 246200006710 active site 246200006711 ribulose/triose binding site [chemical binding]; other site 246200006712 phosphate binding site [ion binding]; other site 246200006713 substrate (anthranilate) binding pocket [chemical binding]; other site 246200006714 product (indole) binding pocket [chemical binding]; other site 246200006715 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 246200006716 trimer interface [polypeptide binding]; other site 246200006717 dimer interface [polypeptide binding]; other site 246200006718 putative active site [active] 246200006719 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 246200006720 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 246200006721 dimer interface [polypeptide binding]; other site 246200006722 putative functional site; other site 246200006723 putative MPT binding site; other site 246200006724 LexA repressor; Validated; Region: PRK00215 246200006725 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 246200006726 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 246200006727 Catalytic site [active] 246200006728 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 246200006729 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 246200006730 Competence protein; Region: Competence; pfam03772 246200006731 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 246200006732 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 246200006733 HIGH motif; other site 246200006734 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 246200006735 active site 246200006736 KMSKS motif; other site 246200006737 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 246200006738 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 246200006739 dimer interface [polypeptide binding]; other site 246200006740 active site 246200006741 citrylCoA binding site [chemical binding]; other site 246200006742 NADH binding [chemical binding]; other site 246200006743 cationic pore residues; other site 246200006744 oxalacetate/citrate binding site [chemical binding]; other site 246200006745 coenzyme A binding site [chemical binding]; other site 246200006746 catalytic triad [active] 246200006747 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 246200006748 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 246200006749 FeS/SAM binding site; other site 246200006750 Predicted cobalamin binding protein [General function prediction only]; Region: COG5012 246200006751 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 246200006752 B12 binding site [chemical binding]; other site 246200006753 cobalt ligand [ion binding]; other site 246200006754 Hint domain; Region: Hint_2; pfam13403 246200006755 Protein of unknown function (DUF1638); Region: DUF1638; pfam07796 246200006756 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200006757 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 246200006758 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 246200006759 dimer interface [polypeptide binding]; other site 246200006760 N-terminal domain interface [polypeptide binding]; other site 246200006761 putative substrate binding pocket (H-site) [chemical binding]; other site 246200006762 HTH domain; Region: HTH_11; pfam08279 246200006763 WYL domain; Region: WYL; pfam13280 246200006764 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 246200006765 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 246200006766 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 246200006767 catalytic site [active] 246200006768 putative active site [active] 246200006769 putative substrate binding site [chemical binding]; other site 246200006770 HRDC domain; Region: HRDC; pfam00570 246200006771 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 246200006772 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 246200006773 active site 246200006774 substrate binding site [chemical binding]; other site 246200006775 cosubstrate binding site; other site 246200006776 catalytic site [active] 246200006777 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 246200006778 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 246200006779 dimerization interface [polypeptide binding]; other site 246200006780 putative ATP binding site [chemical binding]; other site 246200006781 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 246200006782 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200006783 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200006784 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 246200006785 putative effector binding pocket; other site 246200006786 dimerization interface [polypeptide binding]; other site 246200006787 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 246200006788 HAMP domain; Region: HAMP; pfam00672 246200006789 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 246200006790 dimer interface [polypeptide binding]; other site 246200006791 phosphorylation site [posttranslational modification] 246200006792 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 246200006793 ATP binding site [chemical binding]; other site 246200006794 Mg2+ binding site [ion binding]; other site 246200006795 G-X-G motif; other site 246200006796 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 246200006797 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 246200006798 Domain of unknown function DUF20; Region: UPF0118; pfam01594 246200006799 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 246200006800 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 246200006801 active site 246200006802 Zn binding site [ion binding]; other site 246200006803 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 246200006804 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 246200006805 putative active site [active] 246200006806 catalytic site [active] 246200006807 Putative catalytic domain, repeat 2, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_2; cd09161 246200006808 putative active site [active] 246200006809 catalytic site [active] 246200006810 Ion channel; Region: Ion_trans_2; pfam07885 246200006811 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 246200006812 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 246200006813 Walker A/P-loop; other site 246200006814 ATP binding site [chemical binding]; other site 246200006815 Q-loop/lid; other site 246200006816 ABC transporter signature motif; other site 246200006817 Walker B; other site 246200006818 D-loop; other site 246200006819 H-loop/switch region; other site 246200006820 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 246200006821 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 246200006822 putative heme binding pocket [chemical binding]; other site 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 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 246200006826 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 246200006827 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 246200006828 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 246200006829 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 246200006830 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 246200006831 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200006832 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 246200006833 putative DNA binding site [nucleotide binding]; other site 246200006834 putative Zn2+ binding site [ion binding]; other site 246200006835 AsnC family; Region: AsnC_trans_reg; pfam01037 246200006836 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 246200006837 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200006838 DNA-binding site [nucleotide binding]; DNA binding site 246200006839 UTRA domain; Region: UTRA; pfam07702 246200006840 imidazolonepropionase; Validated; Region: PRK09356 246200006841 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 246200006842 active site 246200006843 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 246200006844 active sites [active] 246200006845 tetramer interface [polypeptide binding]; other site 246200006846 N-formylglutamate amidohydrolase; Region: FGase; cl01522 246200006847 urocanate hydratase; Provisional; Region: PRK05414 246200006848 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 246200006849 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 246200006850 active site 246200006851 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 246200006852 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 246200006853 metal binding site [ion binding]; metal-binding site 246200006854 putative dimer interface [polypeptide binding]; other site 246200006855 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 246200006856 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200006857 catalytic residue [active] 246200006858 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 246200006859 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 246200006860 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 246200006861 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 246200006862 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 246200006863 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 246200006864 active site 246200006865 (T/H)XGH motif; other site 246200006866 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 246200006867 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200006868 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200006869 LysR substrate binding domain; Region: LysR_substrate; pfam03466 246200006870 dimerization interface [polypeptide binding]; other site 246200006871 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 246200006872 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 246200006873 tetrameric interface [polypeptide binding]; other site 246200006874 NAD binding site [chemical binding]; other site 246200006875 catalytic residues [active] 246200006876 DsrE/DsrF-like family; Region: DrsE; pfam02635 246200006877 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 246200006878 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 246200006879 Methyltransferase domain; Region: Methyltransf_24; pfam13578 246200006880 carboxylate-amine ligase; Provisional; Region: PRK13515 246200006881 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 246200006882 BNR repeat-like domain; Region: BNR_2; pfam13088 246200006883 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; cl17698 246200006884 Asp-box motif; other site 246200006885 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200006886 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200006887 active site 246200006888 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 246200006889 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 246200006890 substrate binding site [chemical binding]; other site 246200006891 oxyanion hole (OAH) forming residues; other site 246200006892 trimer interface [polypeptide binding]; other site 246200006893 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 246200006894 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 246200006895 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 246200006896 Sulfatase; Region: Sulfatase; cl17466 246200006897 choline-sulfatase; Region: chol_sulfatase; TIGR03417 246200006898 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 246200006899 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200006900 Zn binding site [ion binding]; other site 246200006901 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 246200006902 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 246200006903 non-specific DNA binding site [nucleotide binding]; other site 246200006904 salt bridge; other site 246200006905 sequence-specific DNA binding site [nucleotide binding]; other site 246200006906 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 246200006907 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 246200006908 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 246200006909 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 246200006910 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 246200006911 active site residue [active] 246200006912 Methyltransferase domain; Region: Methyltransf_12; pfam08242 246200006913 Methyltransferase domain; Region: Methyltransf_23; pfam13489 246200006914 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 246200006915 metal ion-dependent adhesion site (MIDAS); other site 246200006916 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 246200006917 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 246200006918 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 246200006919 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 246200006920 Negative regulator of septation ring formation [Cell division and chromosome partitioning]; Region: EzrA; COG4477 246200006921 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 246200006922 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 246200006923 putative substrate translocation pore; other site 246200006924 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 246200006925 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 246200006926 Protein of unknown function; Region: DUF3971; pfam13116 246200006927 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 246200006928 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 246200006929 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 246200006930 catalytic triad [active] 246200006931 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 246200006932 dinuclear metal binding motif [ion binding]; other site 246200006933 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 246200006934 Peptidase family M23; Region: Peptidase_M23; pfam01551 246200006935 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 246200006936 Protein of unknown function (DUF3179); Region: DUF3179; pfam11376 246200006937 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 246200006938 active site 246200006939 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 246200006940 active site 246200006941 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 246200006942 Phosphoglycerate kinase; Region: PGK; pfam00162 246200006943 substrate binding site [chemical binding]; other site 246200006944 hinge regions; other site 246200006945 ADP binding site [chemical binding]; other site 246200006946 catalytic site [active] 246200006947 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 246200006948 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200006949 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 246200006950 dimerization interface [polypeptide binding]; other site 246200006951 Septum formation initiator; Region: DivIC; pfam04977 246200006952 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 246200006953 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 246200006954 tetramer interface [polypeptide binding]; other site 246200006955 TPP-binding site [chemical binding]; other site 246200006956 heterodimer interface [polypeptide binding]; other site 246200006957 phosphorylation loop region [posttranslational modification] 246200006958 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 246200006959 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 246200006960 E3 interaction surface; other site 246200006961 lipoyl attachment site [posttranslational modification]; other site 246200006962 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 246200006963 alpha subunit interface [polypeptide binding]; other site 246200006964 TPP binding site [chemical binding]; other site 246200006965 heterodimer interface [polypeptide binding]; other site 246200006966 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 246200006967 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 246200006968 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 246200006969 E3 interaction surface; other site 246200006970 lipoyl attachment site [posttranslational modification]; other site 246200006971 e3 binding domain; Region: E3_binding; pfam02817 246200006972 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 246200006973 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 246200006974 S-adenosylmethionine binding site [chemical binding]; other site 246200006975 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 246200006976 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 246200006977 dimer interface [polypeptide binding]; other site 246200006978 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200006979 catalytic residue [active] 246200006980 serine acetyltransferase; Provisional; Region: cysE; PRK11132 246200006981 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 246200006982 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 246200006983 trimer interface [polypeptide binding]; other site 246200006984 active site 246200006985 substrate binding site [chemical binding]; other site 246200006986 CoA binding site [chemical binding]; other site 246200006987 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 246200006988 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 246200006989 Putative phage tail protein; Region: Phage-tail_3; pfam13550 246200006990 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 246200006991 NlpC/P60 family; Region: NLPC_P60; cl17555 246200006992 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 246200006993 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 246200006994 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 246200006995 Conserved hypothetical protein 2217 (DUF2460); Region: DUF2460; pfam09343 246200006996 phage conserved hypothetical protein; Region: phage_TIGR02216 246200006997 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 246200006998 Phage major tail protein 2; Region: Phage_tail_2; cl11463 246200006999 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 246200007000 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 246200007001 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 246200007002 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 246200007003 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 246200007004 oligomerization interface [polypeptide binding]; other site 246200007005 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 246200007006 Phage capsid family; Region: Phage_capsid; pfam05065 246200007007 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 246200007008 Phage-related protein [Function unknown]; Region: COG4695 246200007009 Phage portal protein; Region: Phage_portal; pfam04860 246200007010 Uncharacterized conserved protein [Function unknown]; Region: COG5323 246200007011 Terminase-like family; Region: Terminase_6; pfam03237 246200007012 5' nucleotidase family; Region: 5_nucleotid; cl17687 246200007013 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 246200007014 YceG-like family; Region: YceG; pfam02618 246200007015 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 246200007016 dimerization interface [polypeptide binding]; other site 246200007017 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 246200007018 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 246200007019 dimer interface [polypeptide binding]; other site 246200007020 active site 246200007021 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 246200007022 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 246200007023 catalytic residues [active] 246200007024 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 246200007025 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 246200007026 acyl carrier protein; Provisional; Region: acpP; PRK00982 246200007027 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 246200007028 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 246200007029 NAD(P) binding site [chemical binding]; other site 246200007030 homotetramer interface [polypeptide binding]; other site 246200007031 homodimer interface [polypeptide binding]; other site 246200007032 active site 246200007033 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 246200007034 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 246200007035 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 246200007036 YceI-like domain; Region: YceI; smart00867 246200007037 Uncharacterized conserved protein [Function unknown]; Region: COG2353 246200007038 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 246200007039 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 246200007040 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 246200007041 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 246200007042 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 246200007043 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 246200007044 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 246200007045 N-acetyl-D-glucosamine binding site [chemical binding]; other site 246200007046 catalytic residue [active] 246200007047 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 246200007048 non-specific DNA binding site [nucleotide binding]; other site 246200007049 salt bridge; other site 246200007050 sequence-specific DNA binding site [nucleotide binding]; other site 246200007051 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 246200007052 Autoinducer binding domain; Region: Autoind_bind; pfam03472 246200007053 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 246200007054 DNA binding residues [nucleotide binding] 246200007055 dimerization interface [polypeptide binding]; other site 246200007056 Autoinducer synthetase; Region: Autoind_synth; cl17404 246200007057 trigger factor; Provisional; Region: tig; PRK01490 246200007058 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 246200007059 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 246200007060 Gram-negative porin; Region: Porin_4; pfam13609 246200007061 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 246200007062 Hint domain; Region: Hint_2; pfam13403 246200007063 Uncharacterized conserved protein [Function unknown]; Region: COG0062 246200007064 putative carbohydrate kinase; Provisional; Region: PRK10565 246200007065 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 246200007066 putative substrate binding site [chemical binding]; other site 246200007067 putative ATP binding site [chemical binding]; other site 246200007068 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 246200007069 Nitrogen regulatory protein P-II; Region: P-II; smart00938 246200007070 glutamine synthetase; Provisional; Region: glnA; PRK09469 246200007071 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 246200007072 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 246200007073 Transglycosylase SLT domain; Region: SLT_2; pfam13406 246200007074 murein hydrolase B; Provisional; Region: PRK10760; cl17906 246200007075 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 246200007076 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 246200007077 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 246200007078 active site 246200007079 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200007080 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 246200007081 BioY family; Region: BioY; pfam02632 246200007082 adenylosuccinate lyase; Provisional; Region: PRK07492 246200007083 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 246200007084 tetramer interface [polypeptide binding]; other site 246200007085 active site 246200007086 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 246200007087 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 246200007088 FliG C-terminal domain; Region: FliG_C; pfam01706 246200007089 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200007090 EamA-like transporter family; Region: EamA; pfam00892 246200007091 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 246200007092 putative acyl-acceptor binding pocket; other site 246200007093 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 246200007094 aconitate hydratase; Validated; Region: PRK09277 246200007095 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 246200007096 substrate binding site [chemical binding]; other site 246200007097 ligand binding site [chemical binding]; other site 246200007098 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 246200007099 substrate binding site [chemical binding]; other site 246200007100 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 246200007101 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 246200007102 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 246200007103 catalytic residues [active] 246200007104 central insert; other site 246200007105 heme exporter protein CcmC; Region: ccmC; TIGR01191 246200007106 CcmB protein; Region: CcmB; cl17444 246200007107 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 246200007108 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 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 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 246200007117 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 246200007118 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 246200007119 Protein export membrane protein; Region: SecD_SecF; pfam02355 246200007120 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 246200007121 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 246200007122 Preprotein translocase subunit; Region: YajC; pfam02699 246200007123 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 246200007124 Mechanosensitive ion channel; Region: MS_channel; pfam00924 246200007125 SET domain; Region: SET; pfam00856 246200007126 seryl-tRNA synthetase; Provisional; Region: PRK05431 246200007127 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 246200007128 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 246200007129 dimer interface [polypeptide binding]; other site 246200007130 active site 246200007131 motif 1; other site 246200007132 motif 2; other site 246200007133 motif 3; other site 246200007134 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 246200007135 Fatty acid desaturase; Region: FA_desaturase; pfam00487 246200007136 putative di-iron ligands [ion binding]; other site 246200007137 GTP-binding protein Der; Reviewed; Region: PRK00093 246200007138 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 246200007139 G1 box; other site 246200007140 GTP/Mg2+ binding site [chemical binding]; other site 246200007141 Switch I region; other site 246200007142 G2 box; other site 246200007143 Switch II region; other site 246200007144 G3 box; other site 246200007145 G4 box; other site 246200007146 G5 box; other site 246200007147 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 246200007148 G1 box; other site 246200007149 GTP/Mg2+ binding site [chemical binding]; other site 246200007150 Switch I region; other site 246200007151 G2 box; other site 246200007152 G3 box; other site 246200007153 Switch II region; other site 246200007154 G4 box; other site 246200007155 G5 box; other site 246200007156 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 246200007157 Trp docking motif [polypeptide binding]; other site 246200007158 active site 246200007159 PQQ-like domain; Region: PQQ_2; pfam13360 246200007160 PQQ-like domain; Region: PQQ_2; pfam13360 246200007161 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 246200007162 HlyD family secretion protein; Region: HlyD_3; pfam13437 246200007163 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 246200007164 Protein export membrane protein; Region: SecD_SecF; cl14618 246200007165 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 246200007166 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 246200007167 exosortase E/protease, VPEID-CTERM system; Region: exo_VPEID; TIGR04162 246200007168 exosortase/archaeosortase family protein; Region: exo_archaeo; TIGR04178 246200007169 CAAX prenyl protease-related protein; Region: pepcterm_CAAX; TIGR03008 246200007170 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 246200007171 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 246200007172 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 246200007173 Walker A/P-loop; other site 246200007174 ATP binding site [chemical binding]; other site 246200007175 Q-loop/lid; other site 246200007176 ABC transporter signature motif; other site 246200007177 Walker B; other site 246200007178 D-loop; other site 246200007179 H-loop/switch region; other site 246200007180 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 246200007181 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 246200007182 Predicted permeases [General function prediction only]; Region: RarD; COG2962 246200007183 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 246200007184 substrate binding site [chemical binding]; other site 246200007185 oxyanion hole (OAH) forming residues; other site 246200007186 trimer interface [polypeptide binding]; other site 246200007187 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 246200007188 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 246200007189 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 246200007190 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 246200007191 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 246200007192 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 246200007193 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 246200007194 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 246200007195 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200007196 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 246200007197 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 246200007198 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200007199 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 246200007200 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 246200007201 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 246200007202 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 246200007203 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200007204 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200007205 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 246200007206 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 246200007207 Transcriptional regulator [Transcription]; Region: IclR; COG1414 246200007208 Bacterial transcriptional regulator; Region: IclR; pfam01614 246200007209 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 246200007210 DctM-like transporters; Region: DctM; pfam06808 246200007211 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 246200007212 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200007213 choline dehydrogenase; Validated; Region: PRK02106 246200007214 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 246200007215 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 246200007216 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 246200007217 dimer interface [polypeptide binding]; other site 246200007218 phosphorylation site [posttranslational modification] 246200007219 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 246200007220 ATP binding site [chemical binding]; other site 246200007221 Mg2+ binding site [ion binding]; other site 246200007222 G-X-G motif; other site 246200007223 Response regulator receiver domain; Region: Response_reg; pfam00072 246200007224 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 246200007225 active site 246200007226 phosphorylation site [posttranslational modification] 246200007227 intermolecular recognition site; other site 246200007228 dimerization interface [polypeptide binding]; other site 246200007229 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 246200007230 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 246200007231 substrate binding pocket [chemical binding]; other site 246200007232 membrane-bound complex binding site; other site 246200007233 hinge residues; other site 246200007234 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 246200007235 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 246200007236 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 246200007237 motif II; other site 246200007238 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 246200007239 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 246200007240 substrate binding pocket [chemical binding]; other site 246200007241 membrane-bound complex binding site; other site 246200007242 hinge residues; other site 246200007243 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 246200007244 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 246200007245 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 246200007246 dimer interface [polypeptide binding]; other site 246200007247 putative PBP binding loops; other site 246200007248 ABC-ATPase subunit interface; other site 246200007249 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 246200007250 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 246200007251 dimer interface [polypeptide binding]; other site 246200007252 conserved gate region; other site 246200007253 putative PBP binding loops; other site 246200007254 ABC-ATPase subunit interface; other site 246200007255 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 246200007256 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 246200007257 Walker A/P-loop; other site 246200007258 ATP binding site [chemical binding]; other site 246200007259 Q-loop/lid; other site 246200007260 ABC transporter signature motif; other site 246200007261 Walker B; other site 246200007262 D-loop; other site 246200007263 H-loop/switch region; other site 246200007264 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 246200007265 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 246200007266 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200007267 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 246200007268 active site 246200007269 phosphorylation site [posttranslational modification] 246200007270 intermolecular recognition site; other site 246200007271 dimerization interface [polypeptide binding]; other site 246200007272 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 246200007273 DNA binding residues [nucleotide binding] 246200007274 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 246200007275 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 246200007276 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 246200007277 Ligand Binding Site [chemical binding]; other site 246200007278 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200007279 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 246200007280 putative DNA binding site [nucleotide binding]; other site 246200007281 putative Zn2+ binding site [ion binding]; other site 246200007282 AsnC family; Region: AsnC_trans_reg; pfam01037 246200007283 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 246200007284 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 246200007285 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 246200007286 FMN binding site [chemical binding]; other site 246200007287 active site 246200007288 catalytic residues [active] 246200007289 substrate binding site [chemical binding]; other site 246200007290 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 246200007291 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 246200007292 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 246200007293 catalytic loop [active] 246200007294 iron binding site [ion binding]; other site 246200007295 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 246200007296 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200007297 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200007298 active site 246200007299 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200007300 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200007301 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 246200007302 putative dimerization interface [polypeptide binding]; other site 246200007303 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 246200007304 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 246200007305 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 246200007306 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 246200007307 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 246200007308 PYR/PP interface [polypeptide binding]; other site 246200007309 dimer interface [polypeptide binding]; other site 246200007310 TPP binding site [chemical binding]; other site 246200007311 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 246200007312 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 246200007313 TPP-binding site; other site 246200007314 dimer interface [polypeptide binding]; other site 246200007315 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; cl17222 246200007316 active site 246200007317 homotetramer interface [polypeptide binding]; other site 246200007318 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 246200007319 FAD binding domain; Region: FAD_binding_4; pfam01565 246200007320 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 246200007321 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 246200007322 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 246200007323 molybdopterin cofactor binding site [chemical binding]; other site 246200007324 substrate binding site [chemical binding]; other site 246200007325 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 246200007326 molybdopterin cofactor binding site; other site 246200007327 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 246200007328 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 246200007329 active site 246200007330 Int/Topo IB signature motif; other site 246200007331 DNA binding site [nucleotide binding] 246200007332 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 246200007333 putative hydrophobic ligand binding site [chemical binding]; other site 246200007334 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 246200007335 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 246200007336 XdhC Rossmann domain; Region: XdhC_C; pfam13478 246200007337 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 246200007338 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 246200007339 metal ion-dependent adhesion site (MIDAS); other site 246200007340 MoxR-like ATPases [General function prediction only]; Region: COG0714 246200007341 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 246200007342 Walker A motif; other site 246200007343 ATP binding site [chemical binding]; other site 246200007344 Walker B motif; other site 246200007345 arginine finger; other site 246200007346 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 246200007347 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; pfam01315 246200007348 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 246200007349 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 246200007350 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 246200007351 catalytic loop [active] 246200007352 iron binding site [ion binding]; other site 246200007353 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 246200007354 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 246200007355 FAD binding domain; Region: FAD_binding_4; pfam01565 246200007356 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 246200007357 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 246200007358 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 246200007359 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 246200007360 LytTr DNA-binding domain; Region: LytTR; smart00850 246200007361 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 246200007362 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 246200007363 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 246200007364 active site 246200007365 Int/Topo IB signature motif; other site 246200007366 DNA binding site [nucleotide binding] 246200007367 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 246200007368 DDE superfamily endonuclease; Region: DDE_3; pfam13358 246200007369 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 246200007370 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 246200007371 classical (c) SDRs; Region: SDR_c; cd05233 246200007372 NAD(P) binding site [chemical binding]; other site 246200007373 active site 246200007374 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 246200007375 hypothetical protein; Validated; Region: PRK06201 246200007376 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 246200007377 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 246200007378 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200007379 NAD(P) binding site [chemical binding]; other site 246200007380 active site 246200007381 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 246200007382 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 246200007383 active site pocket [active] 246200007384 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 246200007385 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 246200007386 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 246200007387 TcdA/TcdB pore forming domain; Region: TcdA_TcdB_pore; pfam12920 246200007388 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 246200007389 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 246200007390 NADP binding site [chemical binding]; other site 246200007391 homodimer interface [polypeptide binding]; other site 246200007392 active site 246200007393 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 246200007394 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 246200007395 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 246200007396 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 246200007397 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 246200007398 substrate binding site [chemical binding]; other site 246200007399 ATP binding site [chemical binding]; other site 246200007400 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 246200007401 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200007402 NAD(P) binding site [chemical binding]; other site 246200007403 active site 246200007404 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 246200007405 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 246200007406 putative ligand binding site [chemical binding]; other site 246200007407 NAD binding site [chemical binding]; other site 246200007408 catalytic site [active] 246200007409 aspartate aminotransferase; Provisional; Region: PRK08361 246200007410 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 246200007411 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 246200007412 putative NAD(P) binding site [chemical binding]; other site 246200007413 catalytic Zn binding site [ion binding]; other site 246200007414 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 246200007415 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 246200007416 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 246200007417 shikimate binding site; other site 246200007418 NAD(P) binding site [chemical binding]; other site 246200007419 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200007420 EamA-like transporter family; Region: EamA; pfam00892 246200007421 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 246200007422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200007423 NAD(P) binding site [chemical binding]; other site 246200007424 active site 246200007425 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 246200007426 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 246200007427 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 246200007428 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 246200007429 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 246200007430 galactarate dehydratase; Region: galactar-dH20; TIGR03248 246200007431 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 246200007432 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 246200007433 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 246200007434 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 246200007435 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 246200007436 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200007437 Transcriptional regulators [Transcription]; Region: GntR; COG1802 246200007438 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200007439 DNA-binding site [nucleotide binding]; DNA binding site 246200007440 FCD domain; Region: FCD; pfam07729 246200007441 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 246200007442 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 246200007443 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200007444 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200007445 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200007446 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 246200007447 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200007448 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200007449 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 246200007450 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 246200007451 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200007452 DNA-binding site [nucleotide binding]; DNA binding site 246200007453 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 246200007454 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 246200007455 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 246200007456 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 246200007457 active site 246200007458 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 246200007459 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 246200007460 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 246200007461 dimer interface [polypeptide binding]; other site 246200007462 conserved gate region; other site 246200007463 putative PBP binding loops; other site 246200007464 ABC-ATPase subunit interface; other site 246200007465 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 246200007466 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200007467 Walker A/P-loop; other site 246200007468 ATP binding site [chemical binding]; other site 246200007469 Q-loop/lid; other site 246200007470 ABC transporter signature motif; other site 246200007471 Walker B; other site 246200007472 D-loop; other site 246200007473 H-loop/switch region; other site 246200007474 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 246200007475 active site 246200007476 multimer interface [polypeptide binding]; other site 246200007477 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 246200007478 putative substrate translocation pore; other site 246200007479 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 246200007480 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 246200007481 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 246200007482 ABC transporter; Region: ABC_tran_2; pfam12848 246200007483 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 246200007484 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 246200007485 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 246200007486 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 246200007487 catalytic motif [active] 246200007488 Catalytic residue [active] 246200007489 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200007490 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 246200007491 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 246200007492 putative acyl-acceptor binding pocket; other site 246200007493 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 246200007494 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 246200007495 multifunctional aminopeptidase A; Provisional; Region: PRK00913 246200007496 interface (dimer of trimers) [polypeptide binding]; other site 246200007497 Substrate-binding/catalytic site; other site 246200007498 Zn-binding sites [ion binding]; other site 246200007499 Predicted permeases [General function prediction only]; Region: COG0795 246200007500 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 246200007501 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 246200007502 OstA-like protein; Region: OstA; cl00844 246200007503 Organic solvent tolerance protein; Region: OstA_C; pfam04453 246200007504 SurA N-terminal domain; Region: SurA_N; pfam09312 246200007505 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 246200007506 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 246200007507 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 246200007508 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 246200007509 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 246200007510 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 246200007511 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 246200007512 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 246200007513 S-adenosylmethionine binding site [chemical binding]; other site 246200007514 peptide chain release factor 1; Validated; Region: prfA; PRK00591 246200007515 This domain is found in peptide chain release factors; Region: PCRF; smart00937 246200007516 RF-1 domain; Region: RF-1; pfam00472 246200007517 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 246200007518 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 246200007519 agmatinase; Region: agmatinase; TIGR01230 246200007520 oligomer interface [polypeptide binding]; other site 246200007521 putative active site [active] 246200007522 Mn binding site [ion binding]; other site 246200007523 Predicted transcriptional regulators [Transcription]; Region: COG1733 246200007524 Predicted transcriptional regulators [Transcription]; Region: COG1733 246200007525 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 246200007526 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 246200007527 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200007528 active site 246200007529 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 246200007530 agmatinase; Region: agmatinase; TIGR01230 246200007531 oligomer interface [polypeptide binding]; other site 246200007532 putative active site [active] 246200007533 Mn binding site [ion binding]; other site 246200007534 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 246200007535 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 246200007536 metal binding site [ion binding]; metal-binding site 246200007537 putative dimer interface [polypeptide binding]; other site 246200007538 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 246200007539 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 246200007540 homodimer interface [polypeptide binding]; other site 246200007541 metal binding site [ion binding]; metal-binding site 246200007542 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 246200007543 homodimer interface [polypeptide binding]; other site 246200007544 active site 246200007545 putative chemical substrate binding site [chemical binding]; other site 246200007546 metal binding site [ion binding]; metal-binding site 246200007547 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 246200007548 active site 246200007549 tetramer interface [polypeptide binding]; other site 246200007550 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 246200007551 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 246200007552 Coenzyme A binding pocket [chemical binding]; other site 246200007553 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 246200007554 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 246200007555 motif II; other site 246200007556 enolase; Provisional; Region: eno; PRK00077 246200007557 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 246200007558 dimer interface [polypeptide binding]; other site 246200007559 metal binding site [ion binding]; metal-binding site 246200007560 substrate binding pocket [chemical binding]; other site 246200007561 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200007562 EamA-like transporter family; Region: EamA; pfam00892 246200007563 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 246200007564 metal binding site 2 [ion binding]; metal-binding site 246200007565 putative DNA binding helix; other site 246200007566 metal binding site 1 [ion binding]; metal-binding site 246200007567 dimer interface [polypeptide binding]; other site 246200007568 structural Zn2+ binding site [ion binding]; other site 246200007569 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 246200007570 DEAD-like helicases superfamily; Region: DEXDc; smart00487 246200007571 ATP binding site [chemical binding]; other site 246200007572 Mg++ binding site [ion binding]; other site 246200007573 motif III; other site 246200007574 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 246200007575 nucleotide binding region [chemical binding]; other site 246200007576 ATP-binding site [chemical binding]; other site 246200007577 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 246200007578 hypothetical protein; Validated; Region: PRK00029 246200007579 Uncharacterized conserved protein [Function unknown]; Region: COG0397 246200007580 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200007581 EamA-like transporter family; Region: EamA; pfam00892 246200007582 EamA-like transporter family; Region: EamA; pfam00892 246200007583 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 246200007584 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 246200007585 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 246200007586 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 246200007587 active site 246200007588 HIGH motif; other site 246200007589 dimer interface [polypeptide binding]; other site 246200007590 KMSKS motif; other site 246200007591 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 246200007592 RNA binding surface [nucleotide binding]; other site 246200007593 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 246200007594 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 246200007595 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 246200007596 NAD binding site [chemical binding]; other site 246200007597 homodimer interface [polypeptide binding]; other site 246200007598 homotetramer interface [polypeptide binding]; other site 246200007599 active site 246200007600 ABC transporter ATPase component; Reviewed; Region: PRK11147 246200007601 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 246200007602 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200007603 Walker A/P-loop; other site 246200007604 ATP binding site [chemical binding]; other site 246200007605 Q-loop/lid; other site 246200007606 ABC transporter signature motif; other site 246200007607 Walker B; other site 246200007608 D-loop; other site 246200007609 H-loop/switch region; other site 246200007610 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 246200007611 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 246200007612 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 246200007613 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 246200007614 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 246200007615 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 246200007616 putative phosphate acyltransferase; Provisional; Region: PRK05331 246200007617 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 246200007618 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 246200007619 dimer interface [polypeptide binding]; other site 246200007620 active site 246200007621 CoA binding pocket [chemical binding]; other site 246200007622 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 246200007623 IHF dimer interface [polypeptide binding]; other site 246200007624 IHF - DNA interface [nucleotide binding]; other site 246200007625 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 246200007626 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 246200007627 DNA binding residues [nucleotide binding] 246200007628 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 246200007629 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 246200007630 trimer interface [polypeptide binding]; other site 246200007631 active site 246200007632 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 246200007633 trimer interface [polypeptide binding]; other site 246200007634 active site 246200007635 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 246200007636 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 246200007637 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 246200007638 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 246200007639 Sporulation related domain; Region: SPOR; pfam05036 246200007640 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 246200007641 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 246200007642 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 246200007643 active site 246200007644 HIGH motif; other site 246200007645 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 246200007646 KMSK motif region; other site 246200007647 tRNA binding surface [nucleotide binding]; other site 246200007648 DALR anticodon binding domain; Region: DALR_1; smart00836 246200007649 anticodon binding site; other site 246200007650 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 246200007651 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 246200007652 Zn2+ binding site [ion binding]; other site 246200007653 Mg2+ binding site [ion binding]; other site 246200007654 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 246200007655 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 246200007656 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 246200007657 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 246200007658 putative catalytic site [active] 246200007659 putative phosphate binding site [ion binding]; other site 246200007660 active site 246200007661 metal binding site A [ion binding]; metal-binding site 246200007662 DNA binding site [nucleotide binding] 246200007663 putative AP binding site [nucleotide binding]; other site 246200007664 putative metal binding site B [ion binding]; other site 246200007665 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 246200007666 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 246200007667 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 246200007668 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 246200007669 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 246200007670 Walker A motif; other site 246200007671 ATP binding site [chemical binding]; other site 246200007672 Walker B motif; other site 246200007673 arginine finger; other site 246200007674 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 246200007675 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 246200007676 Peptidase family M48; Region: Peptidase_M48; cl12018 246200007677 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 246200007678 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 246200007679 PIN domain; Region: PIN_3; pfam13470 246200007680 PUA domain; Region: PUA; cl00607 246200007681 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 246200007682 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 246200007683 putative RNA binding site [nucleotide binding]; other site 246200007684 Methyltransferase domain; Region: Methyltransf_26; pfam13659 246200007685 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 246200007686 metal binding triad; other site 246200007687 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 246200007688 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 246200007689 metal binding triad; other site 246200007690 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 246200007691 putative deacylase active site [active] 246200007692 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 246200007693 Amidase; Region: Amidase; cl11426 246200007694 AMP-binding domain protein; Validated; Region: PRK08315 246200007695 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 246200007696 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 246200007697 acyl-activating enzyme (AAE) consensus motif; other site 246200007698 putative AMP binding site [chemical binding]; other site 246200007699 putative active site [active] 246200007700 putative CoA binding site [chemical binding]; other site 246200007701 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 246200007702 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 246200007703 active site 246200007704 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 246200007705 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 246200007706 TM-ABC transporter signature motif; other site 246200007707 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 246200007708 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 246200007709 TM-ABC transporter signature motif; other site 246200007710 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200007711 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 246200007712 Walker A/P-loop; other site 246200007713 ATP binding site [chemical binding]; other site 246200007714 Q-loop/lid; other site 246200007715 ABC transporter signature motif; other site 246200007716 Walker B; other site 246200007717 D-loop; other site 246200007718 H-loop/switch region; other site 246200007719 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200007720 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 246200007721 Walker A/P-loop; other site 246200007722 ATP binding site [chemical binding]; other site 246200007723 Q-loop/lid; other site 246200007724 ABC transporter signature motif; other site 246200007725 Walker B; other site 246200007726 D-loop; other site 246200007727 H-loop/switch region; other site 246200007728 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 246200007729 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 246200007730 ligand binding site [chemical binding]; other site 246200007731 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 246200007732 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 246200007733 active site 246200007734 Zn binding site [ion binding]; other site 246200007735 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 246200007736 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200007737 DNA binding residues [nucleotide binding] 246200007738 dimerization interface [polypeptide binding]; other site 246200007739 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200007740 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 246200007741 FAD binding site [chemical binding]; other site 246200007742 substrate binding site [chemical binding]; other site 246200007743 catalytic base [active] 246200007744 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 246200007745 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 246200007746 acyl-activating enzyme (AAE) consensus motif; other site 246200007747 AMP binding site [chemical binding]; other site 246200007748 active site 246200007749 CoA binding site [chemical binding]; other site 246200007750 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 246200007751 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 246200007752 ATP-grasp domain; Region: ATP-grasp_4; cl17255 246200007753 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 246200007754 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 246200007755 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 246200007756 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 246200007757 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 246200007758 carboxyltransferase (CT) interaction site; other site 246200007759 biotinylation site [posttranslational modification]; other site 246200007760 Transcriptional regulators [Transcription]; Region: GntR; COG1802 246200007761 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200007762 DNA-binding site [nucleotide binding]; DNA binding site 246200007763 FCD domain; Region: FCD; pfam07729 246200007764 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 246200007765 Amidohydrolase; Region: Amidohydro_2; pfam04909 246200007766 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200007767 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 246200007768 DctM-like transporters; Region: DctM; pfam06808 246200007769 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 246200007770 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 246200007771 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 246200007772 NAD(P) binding site [chemical binding]; other site 246200007773 Phosphotransferase enzyme family; Region: APH; pfam01636 246200007774 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 246200007775 putative active site [active] 246200007776 putative substrate binding site [chemical binding]; other site 246200007777 ATP binding site [chemical binding]; other site 246200007778 Transcriptional regulators [Transcription]; Region: FadR; COG2186 246200007779 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200007780 DNA-binding site [nucleotide binding]; DNA binding site 246200007781 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 246200007782 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 246200007783 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200007784 Walker A/P-loop; other site 246200007785 ATP binding site [chemical binding]; other site 246200007786 Q-loop/lid; other site 246200007787 ABC transporter signature motif; other site 246200007788 Walker B; other site 246200007789 D-loop; other site 246200007790 H-loop/switch region; other site 246200007791 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200007792 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 246200007793 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 246200007794 dimer interface [polypeptide binding]; other site 246200007795 conserved gate region; other site 246200007796 putative PBP binding loops; other site 246200007797 ABC-ATPase subunit interface; other site 246200007798 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 246200007799 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200007800 Walker A/P-loop; other site 246200007801 ATP binding site [chemical binding]; other site 246200007802 Q-loop/lid; other site 246200007803 ABC transporter signature motif; other site 246200007804 Walker B; other site 246200007805 D-loop; other site 246200007806 H-loop/switch region; other site 246200007807 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200007808 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200007809 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 246200007810 dimer interface [polypeptide binding]; other site 246200007811 conserved gate region; other site 246200007812 putative PBP binding loops; other site 246200007813 ABC-ATPase subunit interface; other site 246200007814 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200007815 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 246200007816 peptide binding site [polypeptide binding]; other site 246200007817 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 246200007818 allantoate amidohydrolase; Reviewed; Region: PRK12890 246200007819 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 246200007820 active site 246200007821 metal binding site [ion binding]; metal-binding site 246200007822 dimer interface [polypeptide binding]; other site 246200007823 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 246200007824 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 246200007825 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 246200007826 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 246200007827 putative aldolase; Validated; Region: PRK08130 246200007828 intersubunit interface [polypeptide binding]; other site 246200007829 active site 246200007830 Zn2+ binding site [ion binding]; other site 246200007831 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 246200007832 GTPase RsgA; Reviewed; Region: PRK01889 246200007833 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 246200007834 GTPase/Zn-binding domain interface [polypeptide binding]; other site 246200007835 GTP/Mg2+ binding site [chemical binding]; other site 246200007836 G4 box; other site 246200007837 G5 box; other site 246200007838 G1 box; other site 246200007839 Switch I region; other site 246200007840 G2 box; other site 246200007841 G3 box; other site 246200007842 Switch II region; other site 246200007843 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 246200007844 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200007845 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 246200007846 active site 246200007847 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 246200007848 RDD family; Region: RDD; pfam06271 246200007849 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 246200007850 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 246200007851 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 246200007852 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200007853 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 246200007854 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 246200007855 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 246200007856 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200007857 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 246200007858 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200007859 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 246200007860 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 246200007861 Histidine kinase; Region: HisKA_3; pfam07730 246200007862 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 246200007863 ATP binding site [chemical binding]; other site 246200007864 Mg2+ binding site [ion binding]; other site 246200007865 G-X-G motif; other site 246200007866 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200007867 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 246200007868 active site 246200007869 phosphorylation site [posttranslational modification] 246200007870 intermolecular recognition site; other site 246200007871 dimerization interface [polypeptide binding]; other site 246200007872 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 246200007873 DNA binding residues [nucleotide binding] 246200007874 dimerization interface [polypeptide binding]; other site 246200007875 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200007876 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200007877 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 246200007878 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 246200007879 PYR/PP interface [polypeptide binding]; other site 246200007880 dimer interface [polypeptide binding]; other site 246200007881 TPP binding site [chemical binding]; other site 246200007882 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 246200007883 Family of unknown function (DUF3836); Region: DUF3836; pfam12930 246200007884 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 246200007885 TPP-binding site [chemical binding]; other site 246200007886 dimer interface [polypeptide binding]; other site 246200007887 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 246200007888 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 246200007889 putative valine binding site [chemical binding]; other site 246200007890 dimer interface [polypeptide binding]; other site 246200007891 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 246200007892 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 246200007893 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 246200007894 non-specific DNA binding site [nucleotide binding]; other site 246200007895 salt bridge; other site 246200007896 sequence-specific DNA binding site [nucleotide binding]; other site 246200007897 Predicted integral membrane protein (DUF2189); Region: DUF2189; pfam09955 246200007898 amidase; Provisional; Region: PRK07486 246200007899 Amidase; Region: Amidase; cl11426 246200007900 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200007901 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 246200007902 active site 246200007903 metal binding site [ion binding]; metal-binding site 246200007904 peptide chain release factor 2; Validated; Region: prfB; PRK00578 246200007905 This domain is found in peptide chain release factors; Region: PCRF; smart00937 246200007906 RF-1 domain; Region: RF-1; pfam00472 246200007907 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 246200007908 protein-splicing catalytic site; other site 246200007909 thioester formation/cholesterol transfer; other site 246200007910 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 246200007911 Transglycosylase; Region: Transgly; pfam00912 246200007912 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 246200007913 AMIN domain; Region: AMIN; pfam11741 246200007914 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 246200007915 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 246200007916 active site 246200007917 metal binding site [ion binding]; metal-binding site 246200007918 aspartate aminotransferase; Provisional; Region: PRK05764 246200007919 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 246200007920 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200007921 homodimer interface [polypeptide binding]; other site 246200007922 catalytic residue [active] 246200007923 Peptidase family M48; Region: Peptidase_M48; cl12018 246200007924 TPR repeat; Region: TPR_11; pfam13414 246200007925 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 246200007926 TPR motif; other site 246200007927 binding surface 246200007928 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 246200007929 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 246200007930 catalytic residues [active] 246200007931 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 246200007932 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 246200007933 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 246200007934 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 246200007935 Helix-turn-helix domain; Region: HTH_25; pfam13413 246200007936 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 246200007937 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 246200007938 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 246200007939 substrate-cofactor binding pocket; other site 246200007940 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200007941 catalytic residue [active] 246200007942 hypothetical protein; Validated; Region: PRK09104 246200007943 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 246200007944 metal binding site [ion binding]; metal-binding site 246200007945 putative dimer interface [polypeptide binding]; other site 246200007946 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 246200007947 Pirin-related protein [General function prediction only]; Region: COG1741 246200007948 Pirin; Region: Pirin; pfam02678 246200007949 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 246200007950 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 246200007951 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 246200007952 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 246200007953 putative active site [active] 246200007954 N-formylglutamate amidohydrolase; Region: FGase; cl01522 246200007955 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200007956 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 246200007957 DctM-like transporters; Region: DctM; pfam06808 246200007958 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200007959 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200007960 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 246200007961 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 246200007962 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 246200007963 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 246200007964 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 246200007965 NAD(P) binding site [chemical binding]; other site 246200007966 catalytic residues [active] 246200007967 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 246200007968 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 246200007969 putative active site [active] 246200007970 metal binding site [ion binding]; metal-binding site 246200007971 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 246200007972 IHF - DNA interface [nucleotide binding]; other site 246200007973 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 246200007974 IHF dimer interface [polypeptide binding]; other site 246200007975 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 246200007976 Found in ATP-dependent protease La (LON); Region: LON; smart00464 246200007977 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 246200007978 Walker A motif; other site 246200007979 ATP binding site [chemical binding]; other site 246200007980 Walker B motif; other site 246200007981 arginine finger; other site 246200007982 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 246200007983 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 246200007984 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 246200007985 FMN binding site [chemical binding]; other site 246200007986 active site 246200007987 substrate binding site [chemical binding]; other site 246200007988 catalytic residue [active] 246200007989 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 246200007990 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 246200007991 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 246200007992 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 246200007993 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 246200007994 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 246200007995 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 246200007996 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 246200007997 triosephosphate isomerase; Provisional; Region: PRK14565 246200007998 substrate binding site [chemical binding]; other site 246200007999 dimer interface [polypeptide binding]; other site 246200008000 catalytic triad [active] 246200008001 putative acetyltransferase; Provisional; Region: PRK03624 246200008002 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 246200008003 Coenzyme A binding pocket [chemical binding]; other site 246200008004 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 246200008005 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 246200008006 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 246200008007 dimerization interface [polypeptide binding]; other site 246200008008 putative DNA binding site [nucleotide binding]; other site 246200008009 putative Zn2+ binding site [ion binding]; other site 246200008010 AsnC family; Region: AsnC_trans_reg; pfam01037 246200008011 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 246200008012 S-adenosylmethionine binding site [chemical binding]; other site 246200008013 DctM-like transporters; Region: DctM; pfam06808 246200008014 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 246200008015 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 246200008016 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200008017 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 246200008018 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 246200008019 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 246200008020 active site 246200008021 phosphorylation site [posttranslational modification] 246200008022 intermolecular recognition site; other site 246200008023 dimerization interface [polypeptide binding]; other site 246200008024 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 246200008025 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 246200008026 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 246200008027 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 246200008028 dimer interface [polypeptide binding]; other site 246200008029 phosphorylation site [posttranslational modification] 246200008030 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 246200008031 ATP binding site [chemical binding]; other site 246200008032 Mg2+ binding site [ion binding]; other site 246200008033 G-X-G motif; other site 246200008034 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200008035 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 246200008036 putative DNA binding site [nucleotide binding]; other site 246200008037 putative Zn2+ binding site [ion binding]; other site 246200008038 AsnC family; Region: AsnC_trans_reg; pfam01037 246200008039 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 246200008040 active site 246200008041 SAM binding site [chemical binding]; other site 246200008042 homodimer interface [polypeptide binding]; other site 246200008043 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 246200008044 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 246200008045 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 246200008046 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 246200008047 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 246200008048 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 246200008049 Active Sites [active] 246200008050 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 246200008051 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 246200008052 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 246200008053 FAD binding pocket [chemical binding]; other site 246200008054 FAD binding motif [chemical binding]; other site 246200008055 phosphate binding motif [ion binding]; other site 246200008056 beta-alpha-beta structure motif; other site 246200008057 NAD binding pocket [chemical binding]; other site 246200008058 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 246200008059 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 246200008060 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 246200008061 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 246200008062 putative MPT binding site; other site 246200008063 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 246200008064 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 246200008065 XdhC Rossmann domain; Region: XdhC_C; pfam13478 246200008066 Sulphur transport; Region: Sulf_transp; pfam04143 246200008067 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 246200008068 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 246200008069 metal ion-dependent adhesion site (MIDAS); other site 246200008070 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 246200008071 MoxR-like ATPases [General function prediction only]; Region: COG0714 246200008072 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 246200008073 Walker A motif; other site 246200008074 ATP binding site [chemical binding]; other site 246200008075 Walker B motif; other site 246200008076 arginine finger; other site 246200008077 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 246200008078 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 246200008079 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 246200008080 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 246200008081 hydrophobic ligand binding site; other site 246200008082 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 246200008083 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 246200008084 active site 246200008085 substrate binding pocket [chemical binding]; other site 246200008086 dimer interface [polypeptide binding]; other site 246200008087 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 246200008088 active site 246200008089 replicative DNA helicase; Provisional; Region: PRK09165 246200008090 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 246200008091 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 246200008092 Walker A motif; other site 246200008093 ATP binding site [chemical binding]; other site 246200008094 Walker B motif; other site 246200008095 DNA binding loops [nucleotide binding] 246200008096 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200008097 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200008098 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 246200008099 dimerization interface [polypeptide binding]; other site 246200008100 D-cysteine desulfhydrase; Validated; Region: PRK03910 246200008101 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 246200008102 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200008103 catalytic residue [active] 246200008104 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 246200008105 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 246200008106 substrate binding pocket [chemical binding]; other site 246200008107 membrane-bound complex binding site; other site 246200008108 hinge residues; other site 246200008109 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 246200008110 dimer interface [polypeptide binding]; other site 246200008111 conserved gate region; other site 246200008112 putative PBP binding loops; other site 246200008113 ABC-ATPase subunit interface; other site 246200008114 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 246200008115 dimer interface [polypeptide binding]; other site 246200008116 conserved gate region; other site 246200008117 putative PBP binding loops; other site 246200008118 ABC-ATPase subunit interface; other site 246200008119 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 246200008120 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 246200008121 Walker A/P-loop; other site 246200008122 ATP binding site [chemical binding]; other site 246200008123 Q-loop/lid; other site 246200008124 ABC transporter signature motif; other site 246200008125 Walker B; other site 246200008126 D-loop; other site 246200008127 H-loop/switch region; other site 246200008128 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200008129 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200008130 aspartate racemase; Region: asp_race; TIGR00035 246200008131 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 246200008132 Aspartase; Region: Aspartase; cd01357 246200008133 active sites [active] 246200008134 tetramer interface [polypeptide binding]; other site 246200008135 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 246200008136 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 246200008137 Walker A/P-loop; other site 246200008138 ATP binding site [chemical binding]; other site 246200008139 Q-loop/lid; other site 246200008140 ABC transporter signature motif; other site 246200008141 Walker B; other site 246200008142 D-loop; other site 246200008143 H-loop/switch region; other site 246200008144 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 246200008145 dimer interface [polypeptide binding]; other site 246200008146 conserved gate region; other site 246200008147 putative PBP binding loops; other site 246200008148 ABC-ATPase subunit interface; other site 246200008149 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 246200008150 dimer interface [polypeptide binding]; other site 246200008151 conserved gate region; other site 246200008152 putative PBP binding loops; other site 246200008153 ABC-ATPase subunit interface; other site 246200008154 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 246200008155 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 246200008156 substrate binding pocket [chemical binding]; other site 246200008157 membrane-bound complex binding site; other site 246200008158 hinge residues; other site 246200008159 cell density-dependent motility repressor; Provisional; Region: PRK10082 246200008160 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200008161 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 246200008162 dimerization interface [polypeptide binding]; other site 246200008163 2-oxoglutarate-dependent dioxygenase; Region: PLN02365 246200008164 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 246200008165 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 246200008166 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 246200008167 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 246200008168 active site 246200008169 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 246200008170 dimer interface [polypeptide binding]; other site 246200008171 substrate binding site [chemical binding]; other site 246200008172 catalytic residues [active] 246200008173 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 246200008174 Permease; Region: Permease; pfam02405 246200008175 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 246200008176 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 246200008177 Walker A/P-loop; other site 246200008178 ATP binding site [chemical binding]; other site 246200008179 Q-loop/lid; other site 246200008180 ABC transporter signature motif; other site 246200008181 Walker B; other site 246200008182 D-loop; other site 246200008183 H-loop/switch region; other site 246200008184 Paraquat-inducible protein A; Region: PqiA; pfam04403 246200008185 DNA repair protein RadA; Provisional; Region: PRK11823 246200008186 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 246200008187 Walker A motif/ATP binding site; other site 246200008188 ATP binding site [chemical binding]; other site 246200008189 Walker B motif; other site 246200008190 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 246200008191 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 246200008192 Colicin V production protein; Region: Colicin_V; pfam02674 246200008193 Hint domain; Region: Hint_2; pfam13403 246200008194 amidophosphoribosyltransferase; Provisional; Region: PRK09123 246200008195 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 246200008196 active site 246200008197 tetramer interface [polypeptide binding]; other site 246200008198 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 246200008199 active site 246200008200 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200008201 NAD(P) binding site [chemical binding]; other site 246200008202 active site 246200008203 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 246200008204 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 246200008205 Walker A motif; other site 246200008206 ATP binding site [chemical binding]; other site 246200008207 Walker B motif; other site 246200008208 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 246200008209 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 246200008210 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 246200008211 Predicted transcriptional regulator [Transcription]; Region: COG2378 246200008212 HTH domain; Region: HTH_11; pfam08279 246200008213 WYL domain; Region: WYL; pfam13280 246200008214 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 246200008215 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 246200008216 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 246200008217 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 246200008218 Peptidase family M23; Region: Peptidase_M23; pfam01551 246200008219 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 246200008220 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 246200008221 S-adenosylmethionine binding site [chemical binding]; other site 246200008222 stationary phase survival protein SurE; Provisional; Region: PRK13931 246200008223 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 246200008224 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 246200008225 Walker A/P-loop; other site 246200008226 ATP binding site [chemical binding]; other site 246200008227 Q-loop/lid; other site 246200008228 ABC transporter signature motif; other site 246200008229 Walker B; other site 246200008230 D-loop; other site 246200008231 H-loop/switch region; other site 246200008232 TOBE domain; Region: TOBE_2; pfam08402 246200008233 Methyltransferase domain; Region: Methyltransf_31; pfam13847 246200008234 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 246200008235 S-adenosylmethionine binding site [chemical binding]; other site 246200008236 DNA alkylation repair enzyme [DNA replication, recombination, and repair]; Region: COG4335 246200008237 short chain dehydrogenase; Provisional; Region: PRK08339 246200008238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200008239 NAD(P) binding site [chemical binding]; other site 246200008240 active site 246200008241 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 246200008242 protein-splicing catalytic site; other site 246200008243 thioester formation/cholesterol transfer; other site 246200008244 Cytochrome C' Region: Cytochrom_C_2; pfam01322 246200008245 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 246200008246 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 246200008247 G1 box; other site 246200008248 putative GEF interaction site [polypeptide binding]; other site 246200008249 GTP/Mg2+ binding site [chemical binding]; other site 246200008250 Switch I region; other site 246200008251 G2 box; other site 246200008252 G3 box; other site 246200008253 Switch II region; other site 246200008254 G4 box; other site 246200008255 G5 box; other site 246200008256 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 246200008257 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 246200008258 Beta-lactamase; Region: Beta-lactamase; pfam00144 246200008259 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 246200008260 CoA binding domain; Region: CoA_binding_2; pfam13380 246200008261 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 246200008262 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 246200008263 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200008264 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200008265 active site 246200008266 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 246200008267 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 246200008268 dimer interface [polypeptide binding]; other site 246200008269 conserved gate region; other site 246200008270 putative PBP binding loops; other site 246200008271 ABC-ATPase subunit interface; other site 246200008272 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 246200008273 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 246200008274 dimer interface [polypeptide binding]; other site 246200008275 conserved gate region; other site 246200008276 putative PBP binding loops; other site 246200008277 ABC-ATPase subunit interface; other site 246200008278 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 246200008279 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 246200008280 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 246200008281 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200008282 Walker A/P-loop; other site 246200008283 ATP binding site [chemical binding]; other site 246200008284 Q-loop/lid; other site 246200008285 ABC transporter signature motif; other site 246200008286 Walker B; other site 246200008287 D-loop; other site 246200008288 H-loop/switch region; other site 246200008289 TOBE domain; Region: TOBE_2; pfam08402 246200008290 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 246200008291 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200008292 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 246200008293 conserved cys residue [active] 246200008294 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200008295 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200008296 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 246200008297 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 246200008298 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200008299 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 246200008300 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 246200008301 substrate binding site [chemical binding]; other site 246200008302 oxyanion hole (OAH) forming residues; other site 246200008303 trimer interface [polypeptide binding]; other site 246200008304 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 246200008305 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 246200008306 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200008307 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 246200008308 NAD(P) binding site [chemical binding]; other site 246200008309 catalytic residues [active] 246200008310 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 246200008311 homotrimer interaction site [polypeptide binding]; other site 246200008312 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 246200008313 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 246200008314 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 246200008315 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 246200008316 CoA-transferase family III; Region: CoA_transf_3; pfam02515 246200008317 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 246200008318 Amino acid synthesis; Region: AA_synth; pfam06684 246200008319 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12898 246200008320 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 246200008321 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 246200008322 active site 246200008323 putative substrate binding region [chemical binding]; other site 246200008324 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 246200008325 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 246200008326 HlyD family secretion protein; Region: HlyD_3; pfam13437 246200008327 GAF domain; Region: GAF; pfam01590 246200008328 GAF domain; Region: GAF_2; pfam13185 246200008329 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 246200008330 HlyD family secretion protein; Region: HlyD_3; pfam13437 246200008331 SapC; Region: SapC; pfam07277 246200008332 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 246200008333 HlyD family secretion protein; Region: HlyD_3; pfam13437 246200008334 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 246200008335 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 246200008336 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 246200008337 NlpC/P60 family; Region: NLPC_P60; cl17555 246200008338 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 246200008339 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 246200008340 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 246200008341 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 246200008342 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 246200008343 HsdM N-terminal domain; Region: HsdM_N; pfam12161 246200008344 Methyltransferase domain; Region: Methyltransf_26; pfam13659 246200008345 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 246200008346 type I site-specific deoxyribonuclease, HsdR family; Region: hsdR; TIGR00348 246200008347 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 246200008348 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 246200008349 ATP binding site [chemical binding]; other site 246200008350 putative Mg++ binding site [ion binding]; other site 246200008351 Protein of unknown function DUF45; Region: DUF45; pfam01863 246200008352 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 246200008353 GIY-YIG motif/motif A; other site 246200008354 putative active site [active] 246200008355 putative metal binding site [ion binding]; other site 246200008356 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 246200008357 Sporulation related domain; Region: SPOR; pfam05036 246200008358 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 246200008359 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 246200008360 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 246200008361 thymidylate kinase; Validated; Region: tmk; PRK00698 246200008362 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 246200008363 TMP-binding site; other site 246200008364 ATP-binding site [chemical binding]; other site 246200008365 DNA polymerase III subunit delta'; Validated; Region: PRK07471 246200008366 AAA ATPase domain; Region: AAA_16; pfam13191 246200008367 DNA polymerase III subunit delta'; Validated; Region: PRK08485 246200008368 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 246200008369 active site 246200008370 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 246200008371 putative hydrolase; Provisional; Region: PRK02113 246200008372 Predicted permeases [General function prediction only]; Region: COG0679 246200008373 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 246200008374 putative active site [active] 246200008375 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 246200008376 Heme NO binding associated; Region: HNOBA; pfam07701 246200008377 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 246200008378 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 246200008379 metal binding site [ion binding]; metal-binding site 246200008380 active site 246200008381 I-site; other site 246200008382 Heme NO binding; Region: HNOB; pfam07700 246200008383 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 246200008384 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 246200008385 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 246200008386 motif II; other site 246200008387 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 246200008388 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 246200008389 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 246200008390 active site 246200008391 phosphorylation site [posttranslational modification] 246200008392 intermolecular recognition site; other site 246200008393 dimerization interface [polypeptide binding]; other site 246200008394 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 246200008395 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 246200008396 metal binding site [ion binding]; metal-binding site 246200008397 active site 246200008398 I-site; other site 246200008399 Heavy-metal resistance; Region: Metal_resist; pfam13801 246200008400 RNA polymerase sigma factor; Provisional; Region: PRK12524 246200008401 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 246200008402 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 246200008403 DNA binding residues [nucleotide binding] 246200008404 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 246200008405 Ca2+ binding site [ion binding]; other site 246200008406 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 246200008407 EF-hand domain pair; Region: EF_hand_5; pfam13499 246200008408 Ca2+ binding site [ion binding]; other site 246200008409 Protein of unknown function (DUF983); Region: DUF983; cl02211 246200008410 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; cd02883 246200008411 nudix motif; other site 246200008412 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 246200008413 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 246200008414 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 246200008415 pantothenate kinase; Reviewed; Region: PRK13318 246200008416 biotin--protein ligase; Provisional; Region: PRK08330 246200008417 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 246200008418 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 246200008419 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 246200008420 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 246200008421 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 246200008422 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 246200008423 hydrogenase 4 subunit D; Validated; Region: PRK06525 246200008424 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 246200008425 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 246200008426 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 246200008427 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 246200008428 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 246200008429 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 246200008430 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 246200008431 4Fe-4S binding domain; Region: Fer4; pfam00037 246200008432 4Fe-4S binding domain; Region: Fer4; pfam00037 246200008433 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 246200008434 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 246200008435 NADH dehydrogenase subunit G; Validated; Region: PRK09130 246200008436 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 246200008437 catalytic loop [active] 246200008438 iron binding site [ion binding]; other site 246200008439 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 246200008440 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 246200008441 molybdopterin cofactor binding site; other site 246200008442 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 246200008443 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 246200008444 SLBB domain; Region: SLBB; pfam10531 246200008445 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 246200008446 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 246200008447 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 246200008448 putative dimer interface [polypeptide binding]; other site 246200008449 [2Fe-2S] cluster binding site [ion binding]; other site 246200008450 Uncharacterized conserved protein [Function unknown]; Region: COG3743 246200008451 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 246200008452 NADH dehydrogenase subunit D; Validated; Region: PRK06075 246200008453 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 246200008454 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 246200008455 NADH dehydrogenase subunit B; Validated; Region: PRK06411 246200008456 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 246200008457 enoyl-CoA hydratase; Provisional; Region: PRK07468 246200008458 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 246200008459 substrate binding site [chemical binding]; other site 246200008460 oxyanion hole (OAH) forming residues; other site 246200008461 trimer interface [polypeptide binding]; other site 246200008462 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 246200008463 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 246200008464 active site 246200008465 catalytic residues [active] 246200008466 metal binding site [ion binding]; metal-binding site 246200008467 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 246200008468 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 246200008469 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 246200008470 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 246200008471 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 246200008472 carboxyltransferase (CT) interaction site; other site 246200008473 biotinylation site [posttranslational modification]; other site 246200008474 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 246200008475 Catalytic site; other site 246200008476 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 246200008477 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 246200008478 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 246200008479 active site 246200008480 acyl-activating enzyme (AAE) consensus motif; other site 246200008481 putative CoA binding site [chemical binding]; other site 246200008482 AMP binding site [chemical binding]; other site 246200008483 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 246200008484 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 246200008485 isovaleryl-CoA dehydrogenase; Region: PLN02519 246200008486 substrate binding site [chemical binding]; other site 246200008487 FAD binding site [chemical binding]; other site 246200008488 catalytic base [active] 246200008489 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 246200008490 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 246200008491 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200008492 catalytic residue [active] 246200008493 phosphoglycolate phosphatase; Provisional; Region: PRK13222 246200008494 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 246200008495 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 246200008496 motif II; other site 246200008497 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 246200008498 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 246200008499 Substrate binding site; other site 246200008500 Mg++ binding site; other site 246200008501 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 246200008502 active site 246200008503 substrate binding site [chemical binding]; other site 246200008504 CoA binding site [chemical binding]; other site 246200008505 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 246200008506 A new structural DNA glycosylase; Region: AlkD_like; cd06561 246200008507 active site 246200008508 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 246200008509 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 246200008510 FeS/SAM binding site; other site 246200008511 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 246200008512 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 246200008513 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 246200008514 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 246200008515 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 246200008516 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 246200008517 putative ligand binding site [chemical binding]; other site 246200008518 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 246200008519 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 246200008520 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200008521 Walker A/P-loop; other site 246200008522 ATP binding site [chemical binding]; other site 246200008523 Q-loop/lid; other site 246200008524 ABC transporter signature motif; other site 246200008525 Walker B; other site 246200008526 D-loop; other site 246200008527 H-loop/switch region; other site 246200008528 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 246200008529 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 246200008530 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 246200008531 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 246200008532 TM-ABC transporter signature motif; other site 246200008533 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 246200008534 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 246200008535 TM-ABC transporter signature motif; other site 246200008536 cytosine deaminase; Validated; Region: PRK07572 246200008537 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 246200008538 active site 246200008539 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 246200008540 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 246200008541 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 246200008542 metal binding site [ion binding]; metal-binding site 246200008543 putative dimer interface [polypeptide binding]; other site 246200008544 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 246200008545 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 246200008546 metal binding site [ion binding]; metal-binding site 246200008547 putative dimer interface [polypeptide binding]; other site 246200008548 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 246200008549 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 246200008550 metal binding site [ion binding]; metal-binding site 246200008551 putative dimer interface [polypeptide binding]; other site 246200008552 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 246200008553 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 246200008554 metal binding site [ion binding]; metal-binding site 246200008555 putative dimer interface [polypeptide binding]; other site 246200008556 acetylornithine deacetylase; Provisional; Region: PRK07522 246200008557 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 246200008558 metal binding site [ion binding]; metal-binding site 246200008559 putative dimer interface [polypeptide binding]; other site 246200008560 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200008561 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 246200008562 Walker A/P-loop; other site 246200008563 ATP binding site [chemical binding]; other site 246200008564 Q-loop/lid; other site 246200008565 ABC transporter signature motif; other site 246200008566 Walker B; other site 246200008567 D-loop; other site 246200008568 H-loop/switch region; other site 246200008569 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200008570 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200008571 Walker A/P-loop; other site 246200008572 ATP binding site [chemical binding]; other site 246200008573 Q-loop/lid; other site 246200008574 ABC transporter signature motif; other site 246200008575 Walker B; other site 246200008576 D-loop; other site 246200008577 H-loop/switch region; other site 246200008578 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200008579 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200008580 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 246200008581 peptide binding site [polypeptide binding]; other site 246200008582 dimer interface [polypeptide binding]; other site 246200008583 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200008584 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 246200008585 dimer interface [polypeptide binding]; other site 246200008586 conserved gate region; other site 246200008587 putative PBP binding loops; other site 246200008588 ABC-ATPase subunit interface; other site 246200008589 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 246200008590 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 246200008591 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 246200008592 dimer interface [polypeptide binding]; other site 246200008593 conserved gate region; other site 246200008594 putative PBP binding loops; other site 246200008595 ABC-ATPase subunit interface; other site 246200008596 Sulphur transport; Region: Sulf_transp; pfam04143 246200008597 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 246200008598 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 246200008599 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 246200008600 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 246200008601 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 246200008602 ligand binding site [chemical binding]; other site 246200008603 homodimer interface [polypeptide binding]; other site 246200008604 NAD(P) binding site [chemical binding]; other site 246200008605 trimer interface B [polypeptide binding]; other site 246200008606 trimer interface A [polypeptide binding]; other site 246200008607 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 246200008608 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 246200008609 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 246200008610 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 246200008611 classical (c) SDRs; Region: SDR_c; cd05233 246200008612 NAD(P) binding site [chemical binding]; other site 246200008613 active site 246200008614 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 246200008615 kynureninase; Region: kynureninase; TIGR01814 246200008616 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200008617 catalytic residue [active] 246200008618 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200008619 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200008620 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 246200008621 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 246200008622 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 246200008623 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 246200008624 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 246200008625 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 246200008626 Hint domain; Region: Hint_2; pfam13403 246200008627 Peptidase family C69; Region: Peptidase_C69; cl17793 246200008628 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 246200008629 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 246200008630 active site 246200008631 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 246200008632 ATP-binding cassette domain of nickel/oligopeptides specific transporters; 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 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 246200008642 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200008643 Walker A/P-loop; other site 246200008644 ATP binding site [chemical binding]; other site 246200008645 Q-loop/lid; other site 246200008646 ABC transporter signature motif; other site 246200008647 Walker B; other site 246200008648 D-loop; other site 246200008649 H-loop/switch region; other site 246200008650 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200008651 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 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; cd06261 246200008653 dimer interface [polypeptide binding]; other site 246200008654 conserved gate region; other site 246200008655 putative PBP binding loops; other site 246200008656 ABC-ATPase subunit interface; other site 246200008657 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200008658 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 246200008659 dimer interface [polypeptide binding]; other site 246200008660 conserved gate region; other site 246200008661 putative PBP binding loops; other site 246200008662 ABC-ATPase subunit interface; other site 246200008663 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 246200008664 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 246200008665 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 246200008666 sequence-specific DNA binding site [nucleotide binding]; other site 246200008667 salt bridge; other site 246200008668 Peptidase C26; Region: Peptidase_C26; pfam07722 246200008669 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 246200008670 catalytic triad [active] 246200008671 Domain of unknown function (DUF336); Region: DUF336; cl01249 246200008672 malate synthase G; Provisional; Region: PRK02999 246200008673 active site 246200008674 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 246200008675 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 246200008676 metal binding site [ion binding]; metal-binding site 246200008677 active site 246200008678 I-site; other site 246200008679 aminopeptidase N; Provisional; Region: pepN; PRK14015 246200008680 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 246200008681 Zn binding site [ion binding]; other site 246200008682 classical (c) SDRs; Region: SDR_c; cd05233 246200008683 NAD(P) binding site [chemical binding]; other site 246200008684 active site 246200008685 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 246200008686 putative NAD(P) binding site [chemical binding]; other site 246200008687 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 246200008688 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 246200008689 GatB domain; Region: GatB_Yqey; smart00845 246200008690 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 246200008691 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 246200008692 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 246200008693 HSP70 interaction site [polypeptide binding]; other site 246200008694 Hint domain; Region: Hint_2; pfam13403 246200008695 Phospholipid methyltransferase; Region: PEMT; pfam04191 246200008696 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 246200008697 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 246200008698 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 246200008699 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 246200008700 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 246200008701 Catalytic site; other site 246200008702 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 246200008703 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 246200008704 metal ion-dependent adhesion site (MIDAS); other site 246200008705 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 246200008706 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 246200008707 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 246200008708 active site 246200008709 Domain of unknown function (DUF427); Region: DUF427; pfam04248 246200008710 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 246200008711 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 246200008712 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200008713 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200008714 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 246200008715 dimerization interface [polypeptide binding]; other site 246200008716 Protein of unknown function (DUF1636); Region: DUF1636; pfam07845 246200008717 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 246200008718 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 246200008719 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 246200008720 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK12321 246200008721 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 246200008722 precorrin-3B synthase; Region: CobG; TIGR02435 246200008723 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 246200008724 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 246200008725 Precorrin-8X methylmutase; Region: CbiC; pfam02570 246200008726 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 246200008727 active site 246200008728 SAM binding site [chemical binding]; other site 246200008729 homodimer interface [polypeptide binding]; other site 246200008730 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 246200008731 active site 246200008732 SAM binding site [chemical binding]; other site 246200008733 homodimer interface [polypeptide binding]; other site 246200008734 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 246200008735 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 246200008736 active site 246200008737 putative homodimer interface [polypeptide binding]; other site 246200008738 SAM binding site [chemical binding]; other site 246200008739 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 246200008740 precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit; Region: CbiT; TIGR02469 246200008741 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 246200008742 active site 246200008743 SAM binding site [chemical binding]; other site 246200008744 homodimer interface [polypeptide binding]; other site 246200008745 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 246200008746 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 246200008747 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 246200008748 active site 246200008749 SAM binding site [chemical binding]; other site 246200008750 homodimer interface [polypeptide binding]; other site 246200008751 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 246200008752 active site 246200008753 SAM binding site [chemical binding]; other site 246200008754 homodimer interface [polypeptide binding]; other site 246200008755 Probable cobalt transporter subunit (CbtB); Region: CbtB; pfam09489 246200008756 cobalt transporter subunit CbtA (proposed); Region: CbtA; TIGR02458 246200008757 Protein of unknown function (DUF1636); Region: DUF1636; pfam07845 246200008758 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 246200008759 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200008760 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 246200008761 putative dimerization interface [polypeptide binding]; other site 246200008762 L-aspartate dehydrogenase; Provisional; Region: PRK13303 246200008763 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 246200008764 Domain of unknown function DUF108; Region: DUF108; pfam01958 246200008765 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 246200008766 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 246200008767 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 246200008768 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 246200008769 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 246200008770 inhibitor site; inhibition site 246200008771 active site 246200008772 dimer interface [polypeptide binding]; other site 246200008773 catalytic residue [active] 246200008774 hypothetical protein; Validated; Region: PRK07586 246200008775 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 246200008776 PYR/PP interface [polypeptide binding]; other site 246200008777 dimer interface [polypeptide binding]; other site 246200008778 TPP binding site [chemical binding]; other site 246200008779 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 246200008780 TPP-binding site [chemical binding]; other site 246200008781 dimer interface [polypeptide binding]; other site 246200008782 Domain of unknown function DUF302; Region: DUF302; pfam03625 246200008783 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 246200008784 acetolactate synthase, catabolic; Region: acolac_catab; TIGR02418 246200008785 PYR/PP interface [polypeptide binding]; other site 246200008786 dimer interface [polypeptide binding]; other site 246200008787 TPP binding site [chemical binding]; other site 246200008788 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 246200008789 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 246200008790 TPP-binding site [chemical binding]; other site 246200008791 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 246200008792 CoA-transferase family III; Region: CoA_transf_3; pfam02515 246200008793 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 246200008794 OpgC protein; Region: OpgC_C; pfam10129 246200008795 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 246200008796 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 246200008797 glucosyltransferase MdoH; Provisional; Region: PRK05454 246200008798 active site 246200008799 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 246200008800 Predicted esterase [General function prediction only]; Region: COG0400 246200008801 putative hydrolase; Provisional; Region: PRK11460 246200008802 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 246200008803 active site residue [active] 246200008804 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 246200008805 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 246200008806 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 246200008807 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 246200008808 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 246200008809 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 246200008810 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 246200008811 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 246200008812 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 246200008813 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 246200008814 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 246200008815 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 246200008816 dimerization interface [polypeptide binding]; other site 246200008817 putative ATP binding site [chemical binding]; other site 246200008818 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 246200008819 tRNA 2-selenouridine synthase; Region: tRNA_sel_U_synt; TIGR03167 246200008820 active site residue [active] 246200008821 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 246200008822 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200008823 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 246200008824 Glutathione S-transferase, C-terminal domain; Region: GST_C; pfam00043 246200008825 N-terminal domain interface [polypeptide binding]; other site 246200008826 TPR repeat; Region: TPR_11; pfam13414 246200008827 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 246200008828 binding surface 246200008829 Tetratricopeptide repeat; Region: TPR_16; pfam13432 246200008830 TPR motif; other site 246200008831 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 246200008832 TPR motif; other site 246200008833 binding surface 246200008834 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 246200008835 sulfotransferase; Region: PLN02164 246200008836 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 246200008837 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 246200008838 active site 246200008839 metal binding site [ion binding]; metal-binding site 246200008840 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 246200008841 Protein of unknown function (DUF952); Region: DUF952; pfam06108 246200008842 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 246200008843 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 246200008844 quinone interaction residues [chemical binding]; other site 246200008845 active site 246200008846 catalytic residues [active] 246200008847 FMN binding site [chemical binding]; other site 246200008848 substrate binding site [chemical binding]; other site 246200008849 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 246200008850 ArsC family; Region: ArsC; pfam03960 246200008851 catalytic residues [active] 246200008852 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 246200008853 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 246200008854 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 246200008855 CoenzymeA binding site [chemical binding]; other site 246200008856 subunit interaction site [polypeptide binding]; other site 246200008857 PHB binding site; other site 246200008858 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 246200008859 CoenzymeA binding site [chemical binding]; other site 246200008860 subunit interaction site [polypeptide binding]; other site 246200008861 PHB binding site; other site 246200008862 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 246200008863 DNA binding residues [nucleotide binding] 246200008864 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 246200008865 putative dimer interface [polypeptide binding]; other site 246200008866 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 246200008867 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 246200008868 DNA binding residues [nucleotide binding] 246200008869 putative dimer interface [polypeptide binding]; other site 246200008870 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 246200008871 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 246200008872 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 246200008873 FAD binding site [chemical binding]; other site 246200008874 substrate binding site [chemical binding]; other site 246200008875 catalytic residues [active] 246200008876 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 246200008877 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200008878 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 246200008879 putative C-terminal domain interface [polypeptide binding]; other site 246200008880 putative GSH binding site (G-site) [chemical binding]; other site 246200008881 putative dimer interface [polypeptide binding]; other site 246200008882 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 246200008883 N-terminal domain interface [polypeptide binding]; other site 246200008884 dimer interface [polypeptide binding]; other site 246200008885 substrate binding pocket (H-site) [chemical binding]; other site 246200008886 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 246200008887 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 246200008888 dimer interface [polypeptide binding]; other site 246200008889 active site 246200008890 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG3837 246200008891 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 246200008892 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 246200008893 substrate binding site [chemical binding]; other site 246200008894 oxyanion hole (OAH) forming residues; other site 246200008895 trimer interface [polypeptide binding]; other site 246200008896 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 246200008897 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200008898 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200008899 Hint domain; Region: Hint_2; pfam13403 246200008900 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 246200008901 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200008902 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 246200008903 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 246200008904 active site 246200008905 adenosine deaminase; Provisional; Region: PRK09358 246200008906 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 246200008907 active site 246200008908 phosphopentomutase; Provisional; Region: PRK05362 246200008909 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 246200008910 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 246200008911 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 246200008912 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 246200008913 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 246200008914 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 246200008915 active site 246200008916 catalytic motif [active] 246200008917 Zn binding site [ion binding]; other site 246200008918 malic enzyme; Reviewed; Region: PRK12862 246200008919 Malic enzyme, N-terminal domain; Region: malic; pfam00390 246200008920 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 246200008921 putative NAD(P) binding site [chemical binding]; other site 246200008922 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 246200008923 Uncharacterized conserved protein [Function unknown]; Region: COG3791 246200008924 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 246200008925 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 246200008926 acyl-activating enzyme (AAE) consensus motif; other site 246200008927 putative AMP binding site [chemical binding]; other site 246200008928 putative active site [active] 246200008929 putative CoA binding site [chemical binding]; other site 246200008930 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 246200008931 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 246200008932 Cu(I) binding site [ion binding]; other site 246200008933 amidase; Provisional; Region: PRK07487 246200008934 Amidase; Region: Amidase; cl11426 246200008935 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 246200008936 ATP-NAD kinase; Region: NAD_kinase; pfam01513 246200008937 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 246200008938 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 246200008939 dimer interface [polypeptide binding]; other site 246200008940 active site 246200008941 glycine-pyridoxal phosphate binding site [chemical binding]; other site 246200008942 folate binding site [chemical binding]; other site 246200008943 Protein of unknown function (DUF817); Region: DUF817; pfam05675 246200008944 acyl-CoA esterase; Provisional; Region: PRK10673 246200008945 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 246200008946 active site 246200008947 catalytic residue [active] 246200008948 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 246200008949 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 246200008950 Cupin domain; Region: Cupin_2; cl17218 246200008951 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 246200008952 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200008953 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200008954 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 246200008955 homotrimer interaction site [polypeptide binding]; other site 246200008956 putative active site [active] 246200008957 Repair protein; Region: Repair_PSII; pfam04536 246200008958 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 246200008959 META domain; Region: META; pfam03724 246200008960 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 246200008961 transmembrane helices; other site 246200008962 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 246200008963 TrkA-C domain; Region: TrkA_C; pfam02080 246200008964 TrkA-C domain; Region: TrkA_C; pfam02080 246200008965 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 246200008966 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 246200008967 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 246200008968 putative active site [active] 246200008969 metal binding site [ion binding]; metal-binding site 246200008970 homodimer binding site [polypeptide binding]; other site 246200008971 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 246200008972 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 246200008973 MgtE intracellular N domain; Region: MgtE_N; smart00924 246200008974 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 246200008975 Divalent cation transporter; Region: MgtE; cl00786 246200008976 guanine deaminase; Provisional; Region: PRK09228 246200008977 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 246200008978 active site 246200008979 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 246200008980 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 246200008981 active site 246200008982 putative substrate binding pocket [chemical binding]; other site 246200008983 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 246200008984 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 246200008985 active site 246200008986 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 246200008987 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 246200008988 non-specific DNA binding site [nucleotide binding]; other site 246200008989 salt bridge; other site 246200008990 sequence-specific DNA binding site [nucleotide binding]; other site 246200008991 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 246200008992 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 246200008993 NAD(P) binding site [chemical binding]; other site 246200008994 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200008995 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200008996 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 246200008997 dimerization interface [polypeptide binding]; other site 246200008998 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 246200008999 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 246200009000 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 246200009001 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 246200009002 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 246200009003 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 246200009004 amidase catalytic site [active] 246200009005 Zn binding residues [ion binding]; other site 246200009006 substrate binding site [chemical binding]; other site 246200009007 Excalibur calcium-binding domain; Region: Excalibur; cl05460 246200009008 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 246200009009 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 246200009010 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 246200009011 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 246200009012 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200009013 putative substrate translocation pore; other site 246200009014 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 246200009015 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 246200009016 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 246200009017 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 246200009018 SnoaL-like domain; Region: SnoaL_3; pfam13474 246200009019 cyclase homology domain; Region: CHD; cd07302 246200009020 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 246200009021 nucleotidyl binding site; other site 246200009022 metal binding site [ion binding]; metal-binding site 246200009023 dimer interface [polypeptide binding]; other site 246200009024 SnoaL-like domain; Region: SnoaL_3; pfam13474 246200009025 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 246200009026 cyclase homology domain; Region: CHD; cd07302 246200009027 nucleotidyl binding site; other site 246200009028 metal binding site [ion binding]; metal-binding site 246200009029 dimer interface [polypeptide binding]; other site 246200009030 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 246200009031 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 246200009032 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 246200009033 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 246200009034 homodimer interaction site [polypeptide binding]; other site 246200009035 cofactor binding site; other site 246200009036 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 246200009037 nucleoside/Zn binding site; other site 246200009038 dimer interface [polypeptide binding]; other site 246200009039 catalytic motif [active] 246200009040 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 246200009041 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 246200009042 RNA binding surface [nucleotide binding]; other site 246200009043 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 246200009044 active site 246200009045 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 246200009046 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 246200009047 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 246200009048 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 246200009049 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 246200009050 adenylate kinase; Reviewed; Region: adk; PRK00279 246200009051 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 246200009052 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 246200009053 putative dimer interface [polypeptide binding]; other site 246200009054 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 246200009055 putative FMN binding site [chemical binding]; other site 246200009056 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 246200009057 putative active site [active] 246200009058 dimerization interface [polypeptide binding]; other site 246200009059 putative tRNAtyr binding site [nucleotide binding]; other site 246200009060 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 246200009061 MOFRL family; Region: MOFRL; pfam05161 246200009062 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 246200009063 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 246200009064 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 246200009065 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200009066 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 246200009067 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200009068 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 246200009069 dimer interface [polypeptide binding]; other site 246200009070 conserved gate region; other site 246200009071 ABC-ATPase subunit interface; other site 246200009072 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 246200009073 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 246200009074 dimer interface [polypeptide binding]; other site 246200009075 conserved gate region; other site 246200009076 putative PBP binding loops; other site 246200009077 ABC-ATPase subunit interface; other site 246200009078 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 246200009079 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200009080 Walker A/P-loop; other site 246200009081 ATP binding site [chemical binding]; other site 246200009082 Q-loop/lid; other site 246200009083 ABC transporter signature motif; other site 246200009084 Walker B; other site 246200009085 D-loop; other site 246200009086 H-loop/switch region; other site 246200009087 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200009088 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200009089 Walker A/P-loop; other site 246200009090 ATP binding site [chemical binding]; other site 246200009091 Q-loop/lid; other site 246200009092 ABC transporter signature motif; other site 246200009093 Walker B; other site 246200009094 D-loop; other site 246200009095 H-loop/switch region; other site 246200009096 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200009097 Uncharacterized conserved protein [Function unknown]; Region: COG3379 246200009098 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 246200009099 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 246200009100 AMP-binding domain protein; Validated; Region: PRK07529 246200009101 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 246200009102 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_4; cd05944 246200009103 acyl-activating enzyme (AAE) consensus motif; other site 246200009104 putative AMP binding site [chemical binding]; other site 246200009105 putative active site [active] 246200009106 putative CoA binding site [chemical binding]; other site 246200009107 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 246200009108 BON domain; Region: BON; pfam04972 246200009109 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 246200009110 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 246200009111 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 246200009112 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200009113 Walker A/P-loop; other site 246200009114 ATP binding site [chemical binding]; other site 246200009115 Q-loop/lid; other site 246200009116 ABC transporter signature motif; other site 246200009117 Walker B; other site 246200009118 D-loop; other site 246200009119 H-loop/switch region; other site 246200009120 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 246200009121 TPR motif; other site 246200009122 binding surface 246200009123 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 246200009124 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 246200009125 dimerization interface [polypeptide binding]; other site 246200009126 putative DNA binding site [nucleotide binding]; other site 246200009127 putative Zn2+ binding site [ion binding]; other site 246200009128 AsnC family; Region: AsnC_trans_reg; pfam01037 246200009129 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 246200009130 Proline dehydrogenase; Region: Pro_dh; pfam01619 246200009131 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 246200009132 Glutamate binding site [chemical binding]; other site 246200009133 NAD binding site [chemical binding]; other site 246200009134 catalytic residues [active] 246200009135 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 246200009136 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 246200009137 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 246200009138 active site 246200009139 dimerization interface [polypeptide binding]; other site 246200009140 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 246200009141 Prostaglandin dehydrogenases; Region: PGDH; cd05288 246200009142 NAD(P) binding site [chemical binding]; other site 246200009143 substrate binding site [chemical binding]; other site 246200009144 dimer interface [polypeptide binding]; other site 246200009145 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 246200009146 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200009147 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 246200009148 putative dimerization interface [polypeptide binding]; other site 246200009149 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 246200009150 FAD binding site [chemical binding]; other site 246200009151 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 246200009152 CoenzymeA binding site [chemical binding]; other site 246200009153 subunit interaction site [polypeptide binding]; other site 246200009154 PHB binding site; other site 246200009155 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 246200009156 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 246200009157 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 246200009158 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 246200009159 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 246200009160 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200009161 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 246200009162 dimerization interface [polypeptide binding]; other site 246200009163 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 246200009164 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 246200009165 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 246200009166 active site 246200009167 HIGH motif; other site 246200009168 nucleotide binding site [chemical binding]; other site 246200009169 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 246200009170 active site 246200009171 KMSKS motif; other site 246200009172 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 246200009173 tRNA binding surface [nucleotide binding]; other site 246200009174 anticodon binding site; other site 246200009175 Domain of unknown function (DUF1992); Region: DUF1992; pfam09350 246200009176 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 246200009177 cyclase homology domain; Region: CHD; cd07302 246200009178 nucleotidyl binding site; other site 246200009179 metal binding site [ion binding]; metal-binding site 246200009180 dimer interface [polypeptide binding]; other site 246200009181 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 246200009182 TAP-like protein; Region: Abhydrolase_4; pfam08386 246200009183 enoyl-CoA hydratase; Provisional; Region: PRK07509 246200009184 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 246200009185 substrate binding site [chemical binding]; other site 246200009186 oxyanion hole (OAH) forming residues; other site 246200009187 trimer interface [polypeptide binding]; other site 246200009188 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 246200009189 Strictosidine synthase; Region: Str_synth; pfam03088 246200009190 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 246200009191 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 246200009192 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200009193 homodimer interface [polypeptide binding]; other site 246200009194 catalytic residue [active] 246200009195 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 246200009196 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200009197 catalytic residue [active] 246200009198 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 246200009199 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 246200009200 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200009201 Walker A/P-loop; other site 246200009202 ATP binding site [chemical binding]; other site 246200009203 Q-loop/lid; other site 246200009204 ABC transporter signature motif; other site 246200009205 Walker B; other site 246200009206 D-loop; other site 246200009207 H-loop/switch region; other site 246200009208 Entner-Doudoroff aldolase; Region: eda; TIGR01182 246200009209 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 246200009210 active site 246200009211 intersubunit interface [polypeptide binding]; other site 246200009212 catalytic residue [active] 246200009213 phosphogluconate dehydratase; Validated; Region: PRK09054 246200009214 6-phosphogluconate dehydratase; Region: edd; TIGR01196 246200009215 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 246200009216 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 246200009217 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 246200009218 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 246200009219 GAF domain; Region: GAF; pfam01590 246200009220 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 246200009221 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 246200009222 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 246200009223 aspartate kinase; Reviewed; Region: PRK06635 246200009224 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 246200009225 putative nucleotide binding site [chemical binding]; other site 246200009226 putative catalytic residues [active] 246200009227 putative Mg ion binding site [ion binding]; other site 246200009228 putative aspartate binding site [chemical binding]; other site 246200009229 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 246200009230 putative allosteric regulatory site; other site 246200009231 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 246200009232 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 246200009233 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 246200009234 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200009235 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 246200009236 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 246200009237 active site 246200009238 phosphorylation site [posttranslational modification] 246200009239 intermolecular recognition site; other site 246200009240 dimerization interface [polypeptide binding]; other site 246200009241 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 246200009242 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 246200009243 dimer interface [polypeptide binding]; other site 246200009244 phosphorylation site [posttranslational modification] 246200009245 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 246200009246 ATP binding site [chemical binding]; other site 246200009247 Mg2+ binding site [ion binding]; other site 246200009248 G-X-G motif; other site 246200009249 Response regulator receiver domain; Region: Response_reg; pfam00072 246200009250 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 246200009251 active site 246200009252 phosphorylation site [posttranslational modification] 246200009253 intermolecular recognition site; other site 246200009254 dimerization interface [polypeptide binding]; other site 246200009255 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 246200009256 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 246200009257 substrate binding pocket [chemical binding]; other site 246200009258 membrane-bound complex binding site; other site 246200009259 hinge residues; other site 246200009260 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 246200009261 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 246200009262 substrate binding pocket [chemical binding]; other site 246200009263 membrane-bound complex binding site; other site 246200009264 hinge residues; other site 246200009265 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 246200009266 dimer interface [polypeptide binding]; other site 246200009267 conserved gate region; other site 246200009268 putative PBP binding loops; other site 246200009269 ABC-ATPase subunit interface; other site 246200009270 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 246200009271 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 246200009272 dimer interface [polypeptide binding]; other site 246200009273 conserved gate region; other site 246200009274 putative PBP binding loops; other site 246200009275 ABC-ATPase subunit interface; other site 246200009276 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 246200009277 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 246200009278 Walker A/P-loop; other site 246200009279 ATP binding site [chemical binding]; other site 246200009280 Q-loop/lid; other site 246200009281 ABC transporter signature motif; other site 246200009282 Walker B; other site 246200009283 D-loop; other site 246200009284 H-loop/switch region; other site 246200009285 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200009286 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200009287 LysR substrate binding domain; Region: LysR_substrate; pfam03466 246200009288 dimerization interface [polypeptide binding]; other site 246200009289 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 246200009290 catalytic triad [active] 246200009291 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 246200009292 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200009293 Walker A/P-loop; other site 246200009294 ATP binding site [chemical binding]; other site 246200009295 Q-loop/lid; other site 246200009296 ABC transporter signature motif; other site 246200009297 Walker B; other site 246200009298 D-loop; other site 246200009299 H-loop/switch region; other site 246200009300 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200009301 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200009302 Walker A/P-loop; other site 246200009303 ATP binding site [chemical binding]; other site 246200009304 Q-loop/lid; other site 246200009305 ABC transporter signature motif; other site 246200009306 Walker B; other site 246200009307 D-loop; other site 246200009308 H-loop/switch region; other site 246200009309 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 246200009310 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 246200009311 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 246200009312 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 246200009313 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200009314 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 246200009315 dimer interface [polypeptide binding]; other site 246200009316 conserved gate region; other site 246200009317 putative PBP binding loops; other site 246200009318 ABC-ATPase subunit interface; other site 246200009319 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200009320 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 246200009321 C factor cell-cell signaling protein; Provisional; Region: PRK09009 246200009322 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 246200009323 NADP binding site [chemical binding]; other site 246200009324 homodimer interface [polypeptide binding]; other site 246200009325 active site 246200009326 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 246200009327 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 246200009328 nudix motif; other site 246200009329 EcsC protein family; Region: EcsC; pfam12787 246200009330 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 246200009331 Coenzyme A binding pocket [chemical binding]; other site 246200009332 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 246200009333 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 246200009334 trimer interface [polypeptide binding]; other site 246200009335 active site 246200009336 substrate binding site [chemical binding]; other site 246200009337 CoA binding site [chemical binding]; other site 246200009338 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 246200009339 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 246200009340 Sulfate transporter family; Region: Sulfate_transp; pfam00916 246200009341 Sulfate transporter family; Region: Sulfate_transp; pfam00916 246200009342 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 246200009343 5'-methylthioadenosine phosphorylase; Provisional; Region: PRK08931 246200009344 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 246200009345 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 246200009346 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 246200009347 active site 246200009348 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 246200009349 FAD binding domain; Region: FAD_binding_4; pfam01565 246200009350 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 246200009351 Beta-lactamase superfamily domain; Region: Lactamase_B_3; pfam13483 246200009352 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 246200009353 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 246200009354 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 246200009355 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 246200009356 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 246200009357 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 246200009358 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; Region: Thr-synth_2; cd01560 246200009359 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200009360 catalytic residue [active] 246200009361 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 246200009362 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 246200009363 Subunit III/VIIa interface [polypeptide binding]; other site 246200009364 Phospholipid binding site [chemical binding]; other site 246200009365 Subunit I/III interface [polypeptide binding]; other site 246200009366 Subunit III/VIb interface [polypeptide binding]; other site 246200009367 Subunit III/VIa interface; other site 246200009368 Subunit III/Vb interface [polypeptide binding]; other site 246200009369 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 246200009370 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 246200009371 UbiA prenyltransferase family; Region: UbiA; pfam01040 246200009372 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 246200009373 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 246200009374 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 246200009375 protease TldD; Provisional; Region: tldD; PRK10735 246200009376 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 246200009377 DNA protecting protein DprA; Region: dprA; TIGR00732 246200009378 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 246200009379 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 246200009380 active site 246200009381 interdomain interaction site; other site 246200009382 putative metal-binding site [ion binding]; other site 246200009383 nucleotide binding site [chemical binding]; other site 246200009384 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 246200009385 domain I; other site 246200009386 DNA binding groove [nucleotide binding] 246200009387 phosphate binding site [ion binding]; other site 246200009388 domain II; other site 246200009389 domain III; other site 246200009390 nucleotide binding site [chemical binding]; other site 246200009391 catalytic site [active] 246200009392 domain IV; other site 246200009393 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 246200009394 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 246200009395 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 246200009396 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 246200009397 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200009398 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 246200009399 putative dimer interface [polypeptide binding]; other site 246200009400 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200009401 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 246200009402 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 246200009403 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 246200009404 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 246200009405 N-acetyl-D-glucosamine binding site [chemical binding]; other site 246200009406 catalytic residue [active] 246200009407 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 246200009408 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 246200009409 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 246200009410 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 246200009411 BON domain; Region: BON; pfam04972 246200009412 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 246200009413 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 246200009414 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 246200009415 ligand binding site [chemical binding]; other site 246200009416 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 246200009417 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 246200009418 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 246200009419 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 246200009420 ATP binding site [chemical binding]; other site 246200009421 Walker A motif; other site 246200009422 hexamer interface [polypeptide binding]; other site 246200009423 Walker B motif; other site 246200009424 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 246200009425 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 246200009426 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 246200009427 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 246200009428 Tetratricopeptide repeat; Region: TPR_12; pfam13424 246200009429 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 246200009430 binding surface 246200009431 TPR motif; other site 246200009432 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 246200009433 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 246200009434 TPR motif; other site 246200009435 binding surface 246200009436 RNA helicase; Region: RNA_helicase; pfam00910 246200009437 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 246200009438 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 246200009439 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 246200009440 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 246200009441 ATP binding site [chemical binding]; other site 246200009442 putative Mg++ binding site [ion binding]; other site 246200009443 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 246200009444 nucleotide binding region [chemical binding]; other site 246200009445 ATP-binding site [chemical binding]; other site 246200009446 DEAD/H associated; Region: DEAD_assoc; pfam08494 246200009447 metallophosphoesterase, DNA ligase-associated; Region: P_estr_lig_assc; TIGR04123 246200009448 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 246200009449 active site 246200009450 metal binding site [ion binding]; metal-binding site 246200009451 LytTr DNA-binding domain; Region: LytTR; smart00850 246200009452 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 246200009453 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 246200009454 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 246200009455 homodimer interface [polypeptide binding]; other site 246200009456 NADP binding site [chemical binding]; other site 246200009457 substrate binding site [chemical binding]; other site 246200009458 Chorismate mutase type II; Region: CM_2; smart00830 246200009459 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 246200009460 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 246200009461 Potassium binding sites [ion binding]; other site 246200009462 Cesium cation binding sites [ion binding]; other site 246200009463 MOSC domain; Region: MOSC; pfam03473 246200009464 FtsH Extracellular; Region: FtsH_ext; pfam06480 246200009465 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 246200009466 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 246200009467 Walker A motif; other site 246200009468 ATP binding site [chemical binding]; other site 246200009469 Walker B motif; other site 246200009470 arginine finger; other site 246200009471 Peptidase family M41; Region: Peptidase_M41; pfam01434 246200009472 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 246200009473 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 246200009474 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 246200009475 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 246200009476 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 246200009477 ligand binding site [chemical binding]; other site 246200009478 translocation protein TolB; Provisional; Region: tolB; PRK05137 246200009479 TolB amino-terminal domain; Region: TolB_N; pfam04052 246200009480 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 246200009481 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 246200009482 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 246200009483 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 246200009484 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 246200009485 TolR protein; Region: tolR; TIGR02801 246200009486 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 246200009487 TolQ protein; Region: tolQ; TIGR02796 246200009488 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 246200009489 active site 246200009490 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 246200009491 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 246200009492 Walker A motif; other site 246200009493 ATP binding site [chemical binding]; other site 246200009494 Walker B motif; other site 246200009495 arginine finger; other site 246200009496 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 246200009497 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 246200009498 RuvA N terminal domain; Region: RuvA_N; pfam01330 246200009499 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 246200009500 active site 246200009501 putative DNA-binding cleft [nucleotide binding]; other site 246200009502 dimer interface [polypeptide binding]; other site 246200009503 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 246200009504 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 246200009505 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 246200009506 S-adenosylmethionine binding site [chemical binding]; other site 246200009507 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 246200009508 putative efflux protein, MATE family; Region: matE; TIGR00797 246200009509 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 246200009510 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200009511 putative substrate translocation pore; other site 246200009512 Sulphur transport; Region: Sulf_transp; pfam04143 246200009513 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 246200009514 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 246200009515 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 246200009516 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 246200009517 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 246200009518 DNA binding residues [nucleotide binding] 246200009519 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 246200009520 primosome assembly protein PriA; Validated; Region: PRK05580 246200009521 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 246200009522 ATP binding site [chemical binding]; other site 246200009523 putative Mg++ binding site [ion binding]; other site 246200009524 helicase superfamily c-terminal domain; Region: HELICc; smart00490 246200009525 nucleotide binding region [chemical binding]; other site 246200009526 ATP-binding site [chemical binding]; other site 246200009527 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 246200009528 active site 246200009529 intersubunit interactions; other site 246200009530 catalytic residue [active] 246200009531 Protein of unknown function, DUF484; Region: DUF484; cl17449 246200009532 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 246200009533 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 246200009534 active site 246200009535 DNA binding site [nucleotide binding] 246200009536 Int/Topo IB signature motif; other site 246200009537 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 246200009538 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 246200009539 Methyltransferase domain; Region: Methyltransf_23; pfam13489 246200009540 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 246200009541 S-adenosylmethionine binding site [chemical binding]; other site 246200009542 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 246200009543 DNA binding site [nucleotide binding] 246200009544 active site 246200009545 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 246200009546 homodimer interface [polypeptide binding]; other site 246200009547 homotetramer interface [polypeptide binding]; other site 246200009548 active site pocket [active] 246200009549 cleavage site 246200009550 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 246200009551 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 246200009552 active site 246200009553 HIGH motif; other site 246200009554 nucleotide binding site [chemical binding]; other site 246200009555 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 246200009556 active site 246200009557 KMSKS motif; other site 246200009558 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 246200009559 tRNA binding surface [nucleotide binding]; other site 246200009560 anticodon binding site; other site 246200009561 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 246200009562 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 246200009563 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_3; cd02434 246200009564 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 246200009565 heme-binding site [chemical binding]; other site 246200009566 hypothetical protein; Provisional; Region: PRK05415 246200009567 Domain of unknown function (DUF697); Region: DUF697; pfam05128 246200009568 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 246200009569 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 246200009570 Coenzyme A binding pocket [chemical binding]; other site 246200009571 YcjX-like family, DUF463; Region: DUF463; pfam04317 246200009572 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 246200009573 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 246200009574 dimerization interface 3.5A [polypeptide binding]; other site 246200009575 active site 246200009576 Uncharacterized conserved protein (DUF2161); Region: DUF2161; cl02298 246200009577 TraB family; Region: TraB; pfam01963 246200009578 TraB family; Region: TraB; pfam01963 246200009579 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 246200009580 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 246200009581 DHHA2 domain; Region: DHHA2; pfam02833 246200009582 Uncharacterized conserved protein [Function unknown]; Region: COG3791 246200009583 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 246200009584 conserved cys residue [active] 246200009585 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 246200009586 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 246200009587 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 246200009588 (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 246200009589 dimer interaction site [polypeptide binding]; other site 246200009590 substrate-binding tunnel; other site 246200009591 active site 246200009592 catalytic site [active] 246200009593 substrate binding site [chemical binding]; other site 246200009594 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 246200009595 Cytochrome b5-like Heme/Steroid binding domain; Region: Cyt-b5; pfam00173 246200009596 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 246200009597 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 246200009598 active site 246200009599 Riboflavin kinase; Region: Flavokinase; pfam01687 246200009600 hypothetical protein; Provisional; Region: PRK05170 246200009601 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 246200009602 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 246200009603 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200009604 catalytic residue [active] 246200009605 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 246200009606 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 246200009607 catalytic site [active] 246200009608 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 246200009609 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 246200009610 putative catalytic residue [active] 246200009611 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 246200009612 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 246200009613 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 246200009614 active site 246200009615 H-type lectin domain; Region: H_lectin; pfam09458 246200009616 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK13443 246200009617 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 246200009618 gamma subunit interface [polypeptide binding]; other site 246200009619 epsilon subunit interface [polypeptide binding]; other site 246200009620 LBP interface [polypeptide binding]; other site 246200009621 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 246200009622 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 246200009623 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 246200009624 alpha subunit interaction interface [polypeptide binding]; other site 246200009625 Walker A motif; other site 246200009626 ATP binding site [chemical binding]; other site 246200009627 Walker B motif; other site 246200009628 inhibitor binding site; inhibition site 246200009629 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 246200009630 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 246200009631 core domain interface [polypeptide binding]; other site 246200009632 delta subunit interface [polypeptide binding]; other site 246200009633 epsilon subunit interface [polypeptide binding]; other site 246200009634 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 246200009635 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 246200009636 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 246200009637 beta subunit interaction interface [polypeptide binding]; other site 246200009638 Walker A motif; other site 246200009639 ATP binding site [chemical binding]; other site 246200009640 Walker B motif; other site 246200009641 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 246200009642 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 246200009643 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 246200009644 Methyltransferase domain; Region: Methyltransf_23; pfam13489 246200009645 Methyltransferase domain; Region: Methyltransf_11; pfam08241 246200009646 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 246200009647 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 246200009648 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 246200009649 Walker A motif; other site 246200009650 ATP binding site [chemical binding]; other site 246200009651 Walker B motif; other site 246200009652 arginine finger; other site 246200009653 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 246200009654 Walker A motif; other site 246200009655 ATP binding site [chemical binding]; other site 246200009656 Walker B motif; other site 246200009657 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 246200009658 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 246200009659 Peptidase family M23; Region: Peptidase_M23; pfam01551 246200009660 hypothetical protein; Validated; Region: PRK09039 246200009661 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 246200009662 ligand binding site [chemical binding]; other site 246200009663 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 246200009664 putative active site pocket [active] 246200009665 dimerization interface [polypeptide binding]; other site 246200009666 putative catalytic residue [active] 246200009667 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 246200009668 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 246200009669 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 246200009670 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 246200009671 prephenate dehydrogenase; Validated; Region: PRK08507 246200009672 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 246200009673 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 246200009674 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200009675 homodimer interface [polypeptide binding]; other site 246200009676 catalytic residue [active] 246200009677 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 246200009678 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 246200009679 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200009680 catalytic residue [active] 246200009681 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200009682 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 246200009683 putative DNA binding site [nucleotide binding]; other site 246200009684 putative Zn2+ binding site [ion binding]; other site 246200009685 AsnC family; Region: AsnC_trans_reg; pfam01037 246200009686 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 246200009687 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 246200009688 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 246200009689 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 246200009690 RNA binding surface [nucleotide binding]; other site 246200009691 Hint domain; Region: Hint_2; pfam13403 246200009692 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 246200009693 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 246200009694 putative [4Fe-4S] binding site [ion binding]; other site 246200009695 putative molybdopterin cofactor binding site [chemical binding]; other site 246200009696 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 246200009697 putative molybdopterin cofactor binding site; other site 246200009698 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 246200009699 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 246200009700 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 246200009701 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200009702 DNA-binding site [nucleotide binding]; DNA binding site 246200009703 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 246200009704 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200009705 homodimer interface [polypeptide binding]; other site 246200009706 catalytic residue [active] 246200009707 BCCT family transporter; Region: BCCT; pfam02028 246200009708 BCCT family transporter; Region: BCCT; pfam02028 246200009709 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 246200009710 Protein of unknown function (DUF3726); Region: DUF3726; pfam12525 246200009711 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 246200009712 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 246200009713 active site 246200009714 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 246200009715 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200009716 NAD(P) binding site [chemical binding]; other site 246200009717 catalytic residues [active] 246200009718 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200009719 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200009720 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 246200009721 dimerization interface [polypeptide binding]; other site 246200009722 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 246200009723 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 246200009724 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 246200009725 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 246200009726 active site 246200009727 dimer interface [polypeptide binding]; other site 246200009728 effector binding site; other site 246200009729 TSCPD domain; Region: TSCPD; pfam12637 246200009730 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 246200009731 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 246200009732 active site 246200009733 Zn binding site [ion binding]; other site 246200009734 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 246200009735 Recombination protein O N terminal; Region: RecO_N; pfam11967 246200009736 Recombination protein O C terminal; Region: RecO_C; pfam02565 246200009737 META domain; Region: META; pfam03724 246200009738 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 246200009739 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 246200009740 dimerization interface [polypeptide binding]; other site 246200009741 active site 246200009742 metal binding site [ion binding]; metal-binding site 246200009743 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 246200009744 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 246200009745 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 246200009746 Catalytic site [active] 246200009747 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 246200009748 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 246200009749 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 246200009750 active site 246200009751 hydrophilic channel; other site 246200009752 dimerization interface [polypeptide binding]; other site 246200009753 catalytic residues [active] 246200009754 active site lid [active] 246200009755 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 246200009756 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 246200009757 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 246200009758 Zn2+ binding site [ion binding]; other site 246200009759 Mg2+ binding site [ion binding]; other site 246200009760 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 246200009761 synthetase active site [active] 246200009762 NTP binding site [chemical binding]; other site 246200009763 metal binding site [ion binding]; metal-binding site 246200009764 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 246200009765 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 246200009766 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 246200009767 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 246200009768 catalytic center binding site [active] 246200009769 ATP binding site [chemical binding]; other site 246200009770 Uncharacterized conserved protein [Function unknown]; Region: COG1432 246200009771 LabA_like proteins; Region: LabA; cd10911 246200009772 putative metal binding site [ion binding]; other site 246200009773 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 246200009774 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 246200009775 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 246200009776 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200009777 C-terminal domain interface [polypeptide binding]; other site 246200009778 GSH binding site (G-site) [chemical binding]; other site 246200009779 dimer interface [polypeptide binding]; other site 246200009780 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 246200009781 N-terminal domain interface [polypeptide binding]; other site 246200009782 dimer interface [polypeptide binding]; other site 246200009783 substrate binding pocket (H-site) [chemical binding]; other site 246200009784 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 246200009785 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 246200009786 Methyltransferase domain; Region: Methyltransf_23; pfam13489 246200009787 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 246200009788 S-adenosylmethionine binding site [chemical binding]; other site 246200009789 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 246200009790 RNA/DNA hybrid binding site [nucleotide binding]; other site 246200009791 active site 246200009792 Predicted membrane protein [Function unknown]; Region: COG2860 246200009793 UPF0126 domain; Region: UPF0126; pfam03458 246200009794 UPF0126 domain; Region: UPF0126; pfam03458 246200009795 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 246200009796 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 246200009797 putative active site [active] 246200009798 substrate binding site [chemical binding]; other site 246200009799 putative cosubstrate binding site; other site 246200009800 catalytic site [active] 246200009801 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 246200009802 substrate binding site [chemical binding]; other site 246200009803 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 246200009804 active site 246200009805 catalytic residues [active] 246200009806 metal binding site [ion binding]; metal-binding site 246200009807 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 246200009808 active site 246200009809 catalytic residues [active] 246200009810 metal binding site [ion binding]; metal-binding site 246200009811 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 246200009812 active site 246200009813 catalytic residues [active] 246200009814 metal binding site [ion binding]; metal-binding site 246200009815 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 246200009816 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 246200009817 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200009818 homodimer interface [polypeptide binding]; other site 246200009819 catalytic residue [active] 246200009820 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 246200009821 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 246200009822 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 246200009823 putative dimer interface [polypeptide binding]; other site 246200009824 N-terminal domain interface [polypeptide binding]; other site 246200009825 putative substrate binding pocket (H-site) [chemical binding]; other site 246200009826 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 246200009827 active site 246200009828 phosphorylation site [posttranslational modification] 246200009829 intermolecular recognition site; other site 246200009830 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 246200009831 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 246200009832 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200009833 catalytic residue [active] 246200009834 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 246200009835 Transglycosylase SLT domain; Region: SLT_2; pfam13406 246200009836 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 246200009837 N-acetyl-D-glucosamine binding site [chemical binding]; other site 246200009838 catalytic residue [active] 246200009839 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 246200009840 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 246200009841 Walker A/P-loop; other site 246200009842 ATP binding site [chemical binding]; other site 246200009843 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 246200009844 Walker B; other site 246200009845 D-loop; other site 246200009846 H-loop/switch region; other site 246200009847 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 246200009848 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 246200009849 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200009850 homodimer interface [polypeptide binding]; other site 246200009851 catalytic residue [active] 246200009852 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 246200009853 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200009854 DNA-binding site [nucleotide binding]; DNA binding site 246200009855 FCD domain; Region: FCD; pfam07729 246200009856 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 246200009857 F0F1 ATP synthase subunit B; Provisional; Region: PRK13455 246200009858 F0F1 ATP synthase subunit B; Provisional; Region: PRK14475 246200009859 F0F1 ATP synthase subunit B'; Provisional; Region: PRK13454 246200009860 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 246200009861 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 246200009862 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 246200009863 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 246200009864 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 246200009865 dimerization interface [polypeptide binding]; other site 246200009866 putative DNA binding site [nucleotide binding]; other site 246200009867 putative Zn2+ binding site [ion binding]; other site 246200009868 EamA-like transporter family; Region: EamA; pfam00892 246200009869 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200009870 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200009871 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 246200009872 dimerization interface [polypeptide binding]; other site 246200009873 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200009874 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 246200009875 putative deacylase active site [active] 246200009876 quinolinate synthetase; Provisional; Region: PRK09375 246200009877 L-aspartate oxidase; Provisional; Region: PRK07512 246200009878 L-aspartate oxidase; Provisional; Region: PRK06175 246200009879 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 246200009880 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06106 246200009881 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 246200009882 dimerization interface [polypeptide binding]; other site 246200009883 active site 246200009884 signal recognition particle protein; Provisional; Region: PRK10867 246200009885 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 246200009886 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 246200009887 Signal peptide binding domain; Region: SRP_SPB; pfam02978 246200009888 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 246200009889 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 246200009890 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 246200009891 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 246200009892 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 246200009893 chorismate mutase; Provisional; Region: PRK09239 246200009894 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 246200009895 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 246200009896 putative FMN binding site [chemical binding]; other site 246200009897 RimM N-terminal domain; Region: RimM; pfam01782 246200009898 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13828 246200009899 PRC-barrel domain; Region: PRC; pfam05239 246200009900 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 246200009901 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 246200009902 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 246200009903 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 246200009904 active site 246200009905 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 246200009906 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 246200009907 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200009908 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 246200009909 C-terminal domain interface [polypeptide binding]; other site 246200009910 GSH binding site (G-site) [chemical binding]; other site 246200009911 dimer interface [polypeptide binding]; other site 246200009912 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 246200009913 N-terminal domain interface [polypeptide binding]; other site 246200009914 dimer interface [polypeptide binding]; other site 246200009915 substrate binding pocket (H-site) [chemical binding]; other site 246200009916 MarR family; Region: MarR_2; pfam12802 246200009917 Transcriptional regulators [Transcription]; Region: MarR; COG1846 246200009918 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 246200009919 TMAO/DMSO reductase; Reviewed; Region: PRK05363 246200009920 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 246200009921 Moco binding site; other site 246200009922 metal coordination site [ion binding]; other site 246200009923 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 246200009924 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 246200009925 active site 246200009926 FMN binding site [chemical binding]; other site 246200009927 substrate binding site [chemical binding]; other site 246200009928 3Fe-4S cluster binding site [ion binding]; other site 246200009929 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 246200009930 Clp amino terminal domain; Region: Clp_N; pfam02861 246200009931 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 246200009932 Walker A motif; other site 246200009933 ATP binding site [chemical binding]; other site 246200009934 Walker B motif; other site 246200009935 arginine finger; other site 246200009936 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 246200009937 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 246200009938 Walker A motif; other site 246200009939 ATP binding site [chemical binding]; other site 246200009940 Walker B motif; other site 246200009941 arginine finger; other site 246200009942 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 246200009943 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 246200009944 active site 246200009945 dimer interface [polypeptide binding]; other site 246200009946 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 246200009947 nudix motif; other site 246200009948 DNA polymerase IV; Provisional; Region: PRK02794 246200009949 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 246200009950 active site 246200009951 DNA binding site [nucleotide binding] 246200009952 DinB family; Region: DinB; cl17821 246200009953 DinB superfamily; Region: DinB_2; pfam12867 246200009954 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 246200009955 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 246200009956 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 246200009957 Sulfatase; Region: Sulfatase; pfam00884 246200009958 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 246200009959 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 246200009960 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 246200009961 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 246200009962 dimer interface [polypeptide binding]; other site 246200009963 conserved gate region; other site 246200009964 putative PBP binding loops; other site 246200009965 ABC-ATPase subunit interface; other site 246200009966 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 246200009967 dimer interface [polypeptide binding]; other site 246200009968 conserved gate region; other site 246200009969 putative PBP binding loops; other site 246200009970 ABC-ATPase subunit interface; other site 246200009971 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 246200009972 acyl-activating enzyme (AAE) consensus motif; other site 246200009973 active site 246200009974 AMP binding site [chemical binding]; other site 246200009975 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 246200009976 CoA binding site [chemical binding]; other site 246200009977 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200009978 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 246200009979 Walker A/P-loop; other site 246200009980 ATP binding site [chemical binding]; other site 246200009981 Q-loop/lid; other site 246200009982 ABC transporter signature motif; other site 246200009983 Walker B; other site 246200009984 D-loop; other site 246200009985 H-loop/switch region; other site 246200009986 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 246200009987 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 246200009988 putative ligand binding site [chemical binding]; other site 246200009989 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 246200009990 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 246200009991 TM-ABC transporter signature motif; other site 246200009992 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 246200009993 TM-ABC transporter signature motif; other site 246200009994 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200009995 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 246200009996 Walker A/P-loop; other site 246200009997 ATP binding site [chemical binding]; other site 246200009998 Q-loop/lid; other site 246200009999 ABC transporter signature motif; other site 246200010000 Walker B; other site 246200010001 D-loop; other site 246200010002 H-loop/switch region; other site 246200010003 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 246200010004 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 246200010005 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 246200010006 acyl-activating enzyme (AAE) consensus motif; other site 246200010007 putative AMP binding site [chemical binding]; other site 246200010008 putative active site [active] 246200010009 putative CoA binding site [chemical binding]; other site 246200010010 PAS fold; Region: PAS_7; pfam12860 246200010011 PAS fold; Region: PAS_4; pfam08448 246200010012 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 246200010013 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 246200010014 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 246200010015 ATP binding site [chemical binding]; other site 246200010016 Mg2+ binding site [ion binding]; other site 246200010017 G-X-G motif; other site 246200010018 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 246200010019 Response regulator receiver domain; Region: Response_reg; pfam00072 246200010020 active site 246200010021 phosphorylation site [posttranslational modification] 246200010022 intermolecular recognition site; other site 246200010023 dimerization interface [polypeptide binding]; other site 246200010024 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 246200010025 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 246200010026 active site 246200010027 phosphorylation site [posttranslational modification] 246200010028 intermolecular recognition site; other site 246200010029 dimerization interface [polypeptide binding]; other site 246200010030 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 246200010031 DNA binding site [nucleotide binding] 246200010032 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200010033 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200010034 MAPEG family; Region: MAPEG; cl09190 246200010035 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200010036 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200010037 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 246200010038 dimerization interface [polypeptide binding]; other site 246200010039 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 246200010040 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 246200010041 active site 246200010042 catalytic triad [active] 246200010043 oxyanion hole [active] 246200010044 allantoate amidohydrolase; Reviewed; Region: PRK12893 246200010045 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 246200010046 active site 246200010047 metal binding site [ion binding]; metal-binding site 246200010048 dimer interface [polypeptide binding]; other site 246200010049 phosphoglycerate mutase; Provisional; Region: PTZ00122 246200010050 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 246200010051 catalytic core [active] 246200010052 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200010053 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 246200010054 C-terminal domain interface [polypeptide binding]; other site 246200010055 GSH binding site (G-site) [chemical binding]; other site 246200010056 dimer interface [polypeptide binding]; other site 246200010057 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 246200010058 dimer interface [polypeptide binding]; other site 246200010059 N-terminal domain interface [polypeptide binding]; other site 246200010060 substrate binding pocket (H-site) [chemical binding]; other site 246200010061 Saccharopine Dehydrogenase NAD-binding and catalytic domains; Region: SDH; cd12188 246200010062 active site 246200010063 ligand binding site [chemical binding]; other site 246200010064 homodimer interface [polypeptide binding]; other site 246200010065 NAD(P) binding site [chemical binding]; other site 246200010066 Uncharacterized conserved protein [Function unknown]; Region: COG4095 246200010067 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 246200010068 NAD(P) binding pocket [chemical binding]; other site 246200010069 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 246200010070 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 246200010071 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 246200010072 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 246200010073 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 246200010074 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 246200010075 DNA binding site [nucleotide binding] 246200010076 active site 246200010077 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 246200010078 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 246200010079 tetramer interface [polypeptide binding]; other site 246200010080 active site 246200010081 Mg2+/Mn2+ binding site [ion binding]; other site 246200010082 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 246200010083 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 246200010084 non-specific DNA binding site [nucleotide binding]; other site 246200010085 salt bridge; other site 246200010086 sequence-specific DNA binding site [nucleotide binding]; other site 246200010087 Cupin domain; Region: Cupin_2; pfam07883 246200010088 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 246200010089 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200010090 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200010091 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 246200010092 dimerization interface [polypeptide binding]; other site 246200010093 Domain of unknown function (DUF897); Region: DUF897; cl01312 246200010094 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 246200010095 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200010096 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200010097 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 246200010098 Core-2/I-Branching enzyme; Region: Branch; pfam02485 246200010099 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 246200010100 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 246200010101 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 246200010102 Walker A motif; other site 246200010103 ATP binding site [chemical binding]; other site 246200010104 Walker B motif; other site 246200010105 arginine finger; other site 246200010106 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 246200010107 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 246200010108 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 246200010109 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 246200010110 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 246200010111 active site 246200010112 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 246200010113 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 246200010114 tetramerization interface [polypeptide binding]; other site 246200010115 NAD(P) binding site [chemical binding]; other site 246200010116 catalytic residues [active] 246200010117 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 246200010118 heme-binding site [chemical binding]; other site 246200010119 ribonuclease R; Region: RNase_R; TIGR02063 246200010120 RNB domain; Region: RNB; pfam00773 246200010121 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 246200010122 RNA binding site [nucleotide binding]; other site 246200010123 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 246200010124 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 246200010125 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 246200010126 metal binding site [ion binding]; metal-binding site 246200010127 dimer interface [polypeptide binding]; other site 246200010128 Hint domain; Region: Hint_2; pfam13403 246200010129 Hint domain; Region: Hint_2; pfam13403 246200010130 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 246200010131 substrate binding pocket [chemical binding]; other site 246200010132 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 246200010133 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 246200010134 membrane-bound complex binding site; other site 246200010135 hinge residues; other site 246200010136 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 246200010137 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 246200010138 trimer interface [polypeptide binding]; other site 246200010139 active site 246200010140 substrate binding site [chemical binding]; other site 246200010141 CoA binding site [chemical binding]; other site 246200010142 biotin synthase; Region: bioB; TIGR00433 246200010143 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 246200010144 FeS/SAM binding site; other site 246200010145 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 246200010146 BioY family; Region: BioY; pfam02632 246200010147 Transcriptional regulators [Transcription]; Region: FadR; COG2186 246200010148 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200010149 DNA-binding site [nucleotide binding]; DNA binding site 246200010150 FCD domain; Region: FCD; pfam07729 246200010151 hypothetical protein; Provisional; Region: PRK06815 246200010152 threonine dehydratase; Provisional; Region: PRK08246 246200010153 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200010154 catalytic residue [active] 246200010155 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 246200010156 cystathionine gamma-lyase; Validated; Region: PRK07582 246200010157 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 246200010158 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200010159 catalytic residue [active] 246200010160 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 246200010161 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 246200010162 FeS/SAM binding site; other site 246200010163 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 246200010164 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 246200010165 L-asparaginase II; Region: Asparaginase_II; pfam06089 246200010166 YCII-related domain; Region: YCII; cl00999 246200010167 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 246200010168 putative hydrophobic ligand binding site [chemical binding]; other site 246200010169 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 246200010170 dimerization interface [polypeptide binding]; other site 246200010171 putative DNA binding site [nucleotide binding]; other site 246200010172 putative Zn2+ binding site [ion binding]; other site 246200010173 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 246200010174 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 246200010175 motif II; other site 246200010176 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 246200010177 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200010178 catalytic residue [active] 246200010179 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 246200010180 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 246200010181 ligand binding site [chemical binding]; other site 246200010182 NAD binding site [chemical binding]; other site 246200010183 dimerization interface [polypeptide binding]; other site 246200010184 catalytic site [active] 246200010185 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 246200010186 putative L-serine binding site [chemical binding]; other site 246200010187 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200010188 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200010189 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 246200010190 substrate binding pocket [chemical binding]; other site 246200010191 dimerization interface [polypeptide binding]; other site 246200010192 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 246200010193 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 246200010194 active site 246200010195 metal binding site [ion binding]; metal-binding site 246200010196 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 246200010197 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 246200010198 NAD(P) binding site [chemical binding]; other site 246200010199 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 246200010200 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 246200010201 substrate-cofactor binding pocket; other site 246200010202 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200010203 catalytic residue [active] 246200010204 RmuC family; Region: RmuC; pfam02646 246200010205 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 246200010206 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 246200010207 ATP binding site [chemical binding]; other site 246200010208 Mg2+ binding site [ion binding]; other site 246200010209 G-X-G motif; other site 246200010210 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 246200010211 ATP binding site [chemical binding]; other site 246200010212 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 246200010213 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 246200010214 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 246200010215 ABC-ATPase subunit interface; other site 246200010216 dimer interface [polypeptide binding]; other site 246200010217 putative PBP binding regions; other site 246200010218 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 246200010219 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 246200010220 ABC-ATPase subunit interface; other site 246200010221 dimer interface [polypeptide binding]; other site 246200010222 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 246200010223 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 246200010224 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 246200010225 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 246200010226 intersubunit interface [polypeptide binding]; other site 246200010227 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 246200010228 intersubunit interface [polypeptide binding]; other site 246200010229 active site 246200010230 catalytic residue [active] 246200010231 Aldehyde dehydrogenase family 16A1-like; Region: ALDH_F16; cd07111 246200010232 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200010233 NAD(P) binding site [chemical binding]; other site 246200010234 catalytic residues [active] 246200010235 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 246200010236 NAD(P) binding site [chemical binding]; other site 246200010237 short chain dehydrogenase; Provisional; Region: PRK07576 246200010238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200010239 NAD(P) binding site [chemical binding]; other site 246200010240 active site 246200010241 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 246200010242 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 246200010243 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 246200010244 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 246200010245 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 246200010246 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 246200010247 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 246200010248 lipoprotein signal peptidase; Provisional; Region: PRK14782 246200010249 lipoprotein signal peptidase; Provisional; Region: PRK14787 246200010250 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 246200010251 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 246200010252 purine monophosphate binding site [chemical binding]; other site 246200010253 dimer interface [polypeptide binding]; other site 246200010254 putative catalytic residues [active] 246200010255 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 246200010256 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 246200010257 NusB family; Region: NusB; pfam01029 246200010258 putative RNA binding site [nucleotide binding]; other site 246200010259 16S rRNA methyltransferase B; Provisional; Region: PRK10901 246200010260 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 246200010261 S-adenosylmethionine binding site [chemical binding]; other site 246200010262 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 246200010263 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 246200010264 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 246200010265 benzoate transporter; Region: benE; TIGR00843 246200010266 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200010267 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200010268 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 246200010269 dimerization interface [polypeptide binding]; other site 246200010270 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 246200010271 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 246200010272 substrate binding pocket [chemical binding]; other site 246200010273 active site 246200010274 iron coordination sites [ion binding]; other site 246200010275 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 246200010276 Zn2+ binding site [ion binding]; other site 246200010277 Mg2+ binding site [ion binding]; other site 246200010278 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 246200010279 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200010280 NAD binding site [chemical binding]; other site 246200010281 catalytic residues [active] 246200010282 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 246200010283 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 246200010284 dimer interface [polypeptide binding]; other site 246200010285 decamer (pentamer of dimers) interface [polypeptide binding]; other site 246200010286 catalytic triad [active] 246200010287 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 246200010288 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 246200010289 SnoaL-like domain; Region: SnoaL_2; pfam12680 246200010290 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 246200010291 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200010292 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200010293 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200010294 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 246200010295 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 246200010296 RNase E interface [polypeptide binding]; other site 246200010297 trimer interface [polypeptide binding]; other site 246200010298 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 246200010299 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 246200010300 RNase E interface [polypeptide binding]; other site 246200010301 trimer interface [polypeptide binding]; other site 246200010302 active site 246200010303 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 246200010304 putative nucleic acid binding region [nucleotide binding]; other site 246200010305 G-X-X-G motif; other site 246200010306 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 246200010307 RNA binding site [nucleotide binding]; other site 246200010308 domain interface; other site 246200010309 Alpha-1,2-fucosyltransferase; Region: Fut1_Fut2_like; cd11301 246200010310 GDP-Fucose binding site [chemical binding]; other site 246200010311 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 246200010312 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 246200010313 active site 246200010314 SnoaL-like domain; Region: SnoaL_2; pfam12680 246200010315 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 246200010316 active site 246200010317 catalytic triad [active] 246200010318 oxyanion hole [active] 246200010319 Predicted permeases [General function prediction only]; Region: RarD; COG2962 246200010320 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200010321 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200010322 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200010323 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 246200010324 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200010325 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200010326 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 246200010327 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200010328 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 246200010329 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 246200010330 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 246200010331 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 246200010332 putative NAD(P) binding site [chemical binding]; other site 246200010333 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200010334 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200010335 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200010336 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200010337 Uncharacterized conserved protein [Function unknown]; Region: COG3791 246200010338 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 246200010339 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 246200010340 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 246200010341 non-specific DNA binding site [nucleotide binding]; other site 246200010342 salt bridge; other site 246200010343 sequence-specific DNA binding site [nucleotide binding]; other site 246200010344 Cupin domain; Region: Cupin_2; pfam07883 246200010345 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 246200010346 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 246200010347 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200010348 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 246200010349 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 246200010350 dimer interface [polypeptide binding]; other site 246200010351 active site 246200010352 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 246200010353 anti sigma factor interaction site; other site 246200010354 regulatory phosphorylation site [posttranslational modification]; other site 246200010355 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 246200010356 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 246200010357 ATP binding site [chemical binding]; other site 246200010358 Mg2+ binding site [ion binding]; other site 246200010359 G-X-G motif; other site 246200010360 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 246200010361 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 246200010362 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 246200010363 Predicted permeases [General function prediction only]; Region: COG0679 246200010364 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 246200010365 N-acetyl-D-glucosamine binding site [chemical binding]; other site 246200010366 catalytic residue [active] 246200010367 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 246200010368 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 246200010369 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 246200010370 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 246200010371 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 246200010372 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 246200010373 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 246200010374 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 246200010375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200010376 homodimer interface [polypeptide binding]; other site 246200010377 catalytic residue [active] 246200010378 amidase; Provisional; Region: PRK07056 246200010379 Amidase; Region: Amidase; cl11426 246200010380 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 246200010381 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 246200010382 Stf0 sulphotransferase; Region: Sulphotransf; pfam09037 246200010383 Uncharacterized conserved protein [Function unknown]; Region: COG2835 246200010384 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 246200010385 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 246200010386 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 246200010387 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 246200010388 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 246200010389 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 246200010390 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 246200010391 putative catalytic site [active] 246200010392 putative phosphate binding site [ion binding]; other site 246200010393 active site 246200010394 metal binding site A [ion binding]; metal-binding site 246200010395 DNA binding site [nucleotide binding] 246200010396 putative AP binding site [nucleotide binding]; other site 246200010397 putative metal binding site B [ion binding]; other site 246200010398 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 246200010399 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 246200010400 active site 246200010401 phosphorylation site [posttranslational modification] 246200010402 intermolecular recognition site; other site 246200010403 dimerization interface [polypeptide binding]; other site 246200010404 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 246200010405 DNA binding site [nucleotide binding] 246200010406 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 246200010407 dimerization interface [polypeptide binding]; other site 246200010408 active site 246200010409 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 246200010410 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 246200010411 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 246200010412 catalytic residue [active] 246200010413 Gram-negative porin; Region: Porin_4; pfam13609 246200010414 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 246200010415 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 246200010416 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 246200010417 HIGH motif; other site 246200010418 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 246200010419 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 246200010420 active site 246200010421 KMSKS motif; other site 246200010422 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 246200010423 tRNA binding surface [nucleotide binding]; other site 246200010424 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 246200010425 Lipopolysaccharide-assembly; Region: LptE; pfam04390 246200010426 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 246200010427 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 246200010428 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200010429 putative C-terminal domain interface [polypeptide binding]; other site 246200010430 putative GSH binding site (G-site) [chemical binding]; other site 246200010431 putative dimer interface [polypeptide binding]; other site 246200010432 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 246200010433 dimer interface [polypeptide binding]; other site 246200010434 N-terminal domain interface [polypeptide binding]; other site 246200010435 substrate binding pocket (H-site) [chemical binding]; other site 246200010436 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 246200010437 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 246200010438 Mechanosensitive ion channel; Region: MS_channel; pfam00924 246200010439 HNH endonuclease; Region: HNH; pfam01844 246200010440 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 246200010441 substrate binding site [chemical binding]; other site 246200010442 oxyanion hole (OAH) forming residues; other site 246200010443 trimer interface [polypeptide binding]; other site 246200010444 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 246200010445 classical (c) SDRs; Region: SDR_c; cd05233 246200010446 NAD(P) binding site [chemical binding]; other site 246200010447 active site 246200010448 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 246200010449 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 246200010450 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 246200010451 active site 246200010452 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 246200010453 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 246200010454 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 246200010455 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 246200010456 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 246200010457 Thioredoxin; Region: Thioredoxin_4; pfam13462 246200010458 Protein of unknown function (DUF721); Region: DUF721; pfam05258 246200010459 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 246200010460 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 246200010461 minor groove reading motif; other site 246200010462 helix-hairpin-helix signature motif; other site 246200010463 substrate binding pocket [chemical binding]; other site 246200010464 active site 246200010465 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 246200010466 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 246200010467 DNA binding and oxoG recognition site [nucleotide binding] 246200010468 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 246200010469 Fatty acid desaturase; Region: FA_desaturase; pfam00487 246200010470 Di-iron ligands [ion binding]; other site 246200010471 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 246200010472 cyclase homology domain; Region: CHD; cd07302 246200010473 nucleotidyl binding site; other site 246200010474 metal binding site [ion binding]; metal-binding site 246200010475 dimer interface [polypeptide binding]; other site 246200010476 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 246200010477 DNA methylase; Region: N6_N4_Mtase; pfam01555 246200010478 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 246200010479 RNA/DNA hybrid binding site [nucleotide binding]; other site 246200010480 active site 246200010481 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 246200010482 DNA binding site [nucleotide binding] 246200010483 Domain of unknown function (DUF427); Region: DUF427; pfam04248 246200010484 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 246200010485 cyclase homology domain; Region: CHD; cd07302 246200010486 nucleotidyl binding site; other site 246200010487 metal binding site [ion binding]; metal-binding site 246200010488 dimer interface [polypeptide binding]; other site 246200010489 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 246200010490 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 246200010491 flagellar biosynthesis repressor FlbT; Reviewed; Region: flbT; PRK00794 246200010492 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12794 246200010493 Flagellin and related hook-associated proteins [Cell motility and secretion]; Region: FlgL; COG1344 246200010494 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 246200010495 FlgN protein; Region: FlgN; pfam05130 246200010496 Rod binding protein; Region: Rod-binding; pfam10135 246200010497 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 246200010498 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK12813 246200010499 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 246200010500 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 246200010501 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 246200010502 Phosphotransferase enzyme family; Region: APH; pfam01636 246200010503 active site 246200010504 substrate binding site [chemical binding]; other site 246200010505 ATP binding site [chemical binding]; other site 246200010506 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 246200010507 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 246200010508 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200010509 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 246200010510 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 246200010511 dimer interface [polypeptide binding]; other site 246200010512 conserved gate region; other site 246200010513 putative PBP binding loops; other site 246200010514 ABC-ATPase subunit interface; other site 246200010515 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 246200010516 dimer interface [polypeptide binding]; other site 246200010517 conserved gate region; other site 246200010518 putative PBP binding loops; other site 246200010519 ABC-ATPase subunit interface; other site 246200010520 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 246200010521 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200010522 Walker A/P-loop; other site 246200010523 ATP binding site [chemical binding]; other site 246200010524 Q-loop/lid; other site 246200010525 ABC transporter signature motif; other site 246200010526 Walker B; other site 246200010527 D-loop; other site 246200010528 H-loop/switch region; other site 246200010529 TOBE domain; Region: TOBE_2; pfam08402 246200010530 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 246200010531 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 246200010532 Transcriptional regulators [Transcription]; Region: GntR; COG1802 246200010533 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200010534 DNA-binding site [nucleotide binding]; DNA binding site 246200010535 FCD domain; Region: FCD; pfam07729 246200010536 putative aminotransferase; Validated; Region: PRK07480 246200010537 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 246200010538 inhibitor-cofactor binding pocket; inhibition site 246200010539 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200010540 catalytic residue [active] 246200010541 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 246200010542 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200010543 Walker A/P-loop; other site 246200010544 ATP binding site [chemical binding]; other site 246200010545 Q-loop/lid; other site 246200010546 ABC transporter signature motif; other site 246200010547 Walker B; other site 246200010548 D-loop; other site 246200010549 H-loop/switch region; other site 246200010550 TOBE domain; Region: TOBE_2; pfam08402 246200010551 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 246200010552 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 246200010553 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 246200010554 putative PBP binding loops; other site 246200010555 ABC-ATPase subunit interface; other site 246200010556 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 246200010557 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 246200010558 dimer interface [polypeptide binding]; other site 246200010559 conserved gate region; other site 246200010560 putative PBP binding loops; other site 246200010561 ABC-ATPase subunit interface; other site 246200010562 Protein of unknown function, DUF599; Region: DUF599; pfam04654 246200010563 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 246200010564 FAD binding domain; Region: FAD_binding_4; pfam01565 246200010565 FAD binding domain; Region: FAD_binding_4; pfam01565 246200010566 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 246200010567 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 246200010568 Cysteine-rich domain; Region: CCG; pfam02754 246200010569 Cysteine-rich domain; Region: CCG; pfam02754 246200010570 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 246200010571 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200010572 putative substrate translocation pore; other site 246200010573 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 246200010574 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 246200010575 active site 246200010576 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 246200010577 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 246200010578 putative dimer interface [polypeptide binding]; other site 246200010579 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 246200010580 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 246200010581 C-terminal, alpha helical domain of Metaxin and related proteins; Region: GST_C_Metaxin; cd03193 246200010582 putative N-terminal domain interface [polypeptide binding]; other site 246200010583 Predicted transcriptional regulator [Transcription]; Region: COG2378 246200010584 HTH domain; Region: HTH_11; pfam08279 246200010585 WYL domain; Region: WYL; pfam13280 246200010586 Transglycosylase SLT domain; Region: SLT_2; pfam13406 246200010587 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 246200010588 N-acetyl-D-glucosamine binding site [chemical binding]; other site 246200010589 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 246200010590 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 246200010591 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 246200010592 putative tRNA-binding site [nucleotide binding]; other site 246200010593 B3/4 domain; Region: B3_4; pfam03483 246200010594 tRNA synthetase B5 domain; Region: B5; smart00874 246200010595 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 246200010596 dimer interface [polypeptide binding]; other site 246200010597 motif 1; other site 246200010598 motif 3; other site 246200010599 motif 2; other site 246200010600 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 246200010601 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200010602 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200010603 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 246200010604 dimerization interface [polypeptide binding]; other site 246200010605 Methyltransferase domain; Region: Methyltransf_23; pfam13489 246200010606 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 246200010607 S-adenosylmethionine binding site [chemical binding]; other site 246200010608 Protein of unknown function (DUF2872); Region: DUF2872; pfam11071 246200010609 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 246200010610 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200010611 putative substrate translocation pore; other site 246200010612 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200010613 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 246200010614 C-terminal domain interface [polypeptide binding]; other site 246200010615 GSH binding site (G-site) [chemical binding]; other site 246200010616 dimer interface [polypeptide binding]; other site 246200010617 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 246200010618 dimer interface [polypeptide binding]; other site 246200010619 N-terminal domain interface [polypeptide binding]; other site 246200010620 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 246200010621 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 246200010622 Mechanosensitive ion channel; Region: MS_channel; pfam00924 246200010623 elongation factor Tu; Reviewed; Region: PRK00049 246200010624 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 246200010625 G1 box; other site 246200010626 GEF interaction site [polypeptide binding]; other site 246200010627 GTP/Mg2+ binding site [chemical binding]; other site 246200010628 Switch I region; other site 246200010629 G2 box; other site 246200010630 G3 box; other site 246200010631 Switch II region; other site 246200010632 G4 box; other site 246200010633 G5 box; other site 246200010634 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 246200010635 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 246200010636 Antibiotic Binding Site [chemical binding]; other site 246200010637 elongation factor G; Reviewed; Region: PRK00007 246200010638 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 246200010639 G1 box; other site 246200010640 putative GEF interaction site [polypeptide binding]; other site 246200010641 GTP/Mg2+ binding site [chemical binding]; other site 246200010642 Switch I region; other site 246200010643 G2 box; other site 246200010644 G3 box; other site 246200010645 Switch II region; other site 246200010646 G4 box; other site 246200010647 G5 box; other site 246200010648 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 246200010649 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 246200010650 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 246200010651 30S ribosomal protein S7; Validated; Region: PRK05302 246200010652 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 246200010653 S17 interaction site [polypeptide binding]; other site 246200010654 S8 interaction site; other site 246200010655 16S rRNA interaction site [nucleotide binding]; other site 246200010656 streptomycin interaction site [chemical binding]; other site 246200010657 23S rRNA interaction site [nucleotide binding]; other site 246200010658 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 246200010659 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 246200010660 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 246200010661 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200010662 EamA-like transporter family; Region: EamA; pfam00892 246200010663 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 246200010664 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200010665 putative substrate translocation pore; other site 246200010666 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 246200010667 sequence-specific DNA binding site [nucleotide binding]; other site 246200010668 salt bridge; other site 246200010669 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 246200010670 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 246200010671 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 246200010672 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 246200010673 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 246200010674 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 246200010675 cleft; other site 246200010676 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 246200010677 Rpb1 - Rpb5 interaction site [polypeptide binding]; other site 246200010678 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 246200010679 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 246200010680 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 246200010681 DNA binding site [nucleotide binding] 246200010682 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 246200010683 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 246200010684 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 246200010685 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 246200010686 RPB12 interaction site [polypeptide binding]; other site 246200010687 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 246200010688 RPB11 interaction site [polypeptide binding]; other site 246200010689 RPB12 interaction site [polypeptide binding]; other site 246200010690 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 246200010691 RPB3 interaction site [polypeptide binding]; other site 246200010692 RPB1 interaction site [polypeptide binding]; other site 246200010693 RPB11 interaction site [polypeptide binding]; other site 246200010694 RPB10 interaction site [polypeptide binding]; other site 246200010695 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 246200010696 core dimer interface [polypeptide binding]; other site 246200010697 peripheral dimer interface [polypeptide binding]; other site 246200010698 L10 interface [polypeptide binding]; other site 246200010699 L11 interface [polypeptide binding]; other site 246200010700 putative EF-Tu interaction site [polypeptide binding]; other site 246200010701 putative EF-G interaction site [polypeptide binding]; other site 246200010702 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 246200010703 23S rRNA interface [nucleotide binding]; other site 246200010704 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 246200010705 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 246200010706 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 246200010707 mRNA/rRNA interface [nucleotide binding]; other site 246200010708 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 246200010709 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 246200010710 23S rRNA interface [nucleotide binding]; other site 246200010711 L7/L12 interface [polypeptide binding]; other site 246200010712 putative thiostrepton binding site; other site 246200010713 L25 interface [polypeptide binding]; other site 246200010714 Hint domain; Region: Hint_2; pfam13403 246200010715 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 246200010716 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 246200010717 putative homodimer interface [polypeptide binding]; other site 246200010718 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 246200010719 heterodimer interface [polypeptide binding]; other site 246200010720 homodimer interface [polypeptide binding]; other site 246200010721 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 246200010722 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 246200010723 cytochrome oxidase maturation protein, cbb3-type; Region: ccoS; TIGR00847 246200010724 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 246200010725 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 246200010726 metal-binding site [ion binding] 246200010727 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 246200010728 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 246200010729 motif II; other site 246200010730 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 246200010731 FixH; Region: FixH; pfam05751 246200010732 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 246200010733 4Fe-4S binding domain; Region: Fer4_5; pfam12801 246200010734 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 246200010735 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 246200010736 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 246200010737 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 246200010738 Cytochrome c; Region: Cytochrom_C; pfam00034 246200010739 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 246200010740 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 246200010741 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 246200010742 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 246200010743 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 246200010744 Low-spin heme binding site [chemical binding]; other site 246200010745 Putative water exit pathway; other site 246200010746 Binuclear center (active site) [active] 246200010747 Putative proton exit pathway; other site 246200010748 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 246200010749 Ligand Binding Site [chemical binding]; other site 246200010750 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 246200010751 Glycine/serine hydroxymethyltransferase [Amino acid transport and metabolism]; Region: GlyA; COG0112 246200010752 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200010753 catalytic residue [active] 246200010754 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200010755 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 246200010756 dimerization interface [polypeptide binding]; other site 246200010757 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 246200010758 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 246200010759 ligand binding site [chemical binding]; other site 246200010760 flexible hinge region; other site 246200010761 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 246200010762 putative switch regulator; other site 246200010763 non-specific DNA interactions [nucleotide binding]; other site 246200010764 DNA binding site [nucleotide binding] 246200010765 sequence specific DNA binding site [nucleotide binding]; other site 246200010766 putative cAMP binding site [chemical binding]; other site 246200010767 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 246200010768 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 246200010769 FeS/SAM binding site; other site 246200010770 HemN C-terminal domain; Region: HemN_C; pfam06969 246200010771 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 246200010772 elongation factor G; Reviewed; Region: PRK12740 246200010773 G1 box; other site 246200010774 putative GEF interaction site [polypeptide binding]; other site 246200010775 GTP/Mg2+ binding site [chemical binding]; other site 246200010776 Switch I region; other site 246200010777 G2 box; other site 246200010778 G3 box; other site 246200010779 Switch II region; other site 246200010780 G4 box; other site 246200010781 G5 box; other site 246200010782 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 246200010783 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 246200010784 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 246200010785 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200010786 Walker A/P-loop; other site 246200010787 ATP binding site [chemical binding]; other site 246200010788 Q-loop/lid; other site 246200010789 ABC transporter signature motif; other site 246200010790 Walker B; other site 246200010791 D-loop; other site 246200010792 H-loop/switch region; other site 246200010793 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 246200010794 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200010795 Walker A/P-loop; other site 246200010796 ATP binding site [chemical binding]; other site 246200010797 Q-loop/lid; other site 246200010798 ABC transporter signature motif; other site 246200010799 Walker B; other site 246200010800 D-loop; other site 246200010801 H-loop/switch region; other site 246200010802 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 246200010803 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 246200010804 dimer interface [polypeptide binding]; other site 246200010805 conserved gate region; other site 246200010806 putative PBP binding loops; other site 246200010807 ABC-ATPase subunit interface; other site 246200010808 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 246200010809 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 246200010810 dimer interface [polypeptide binding]; other site 246200010811 conserved gate region; other site 246200010812 putative PBP binding loops; other site 246200010813 ABC-ATPase subunit interface; other site 246200010814 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 246200010815 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 246200010816 Cytochrome c; Region: Cytochrom_C; cl11414 246200010817 prephenate dehydratase; Provisional; Region: PRK11899 246200010818 Prephenate dehydratase; Region: PDT; pfam00800 246200010819 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 246200010820 putative L-Phe binding site [chemical binding]; other site 246200010821 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 246200010822 hydrophobic ligand binding site; other site 246200010823 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 246200010824 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 246200010825 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 246200010826 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 246200010827 putative NADH binding site [chemical binding]; other site 246200010828 putative active site [active] 246200010829 nudix motif; other site 246200010830 putative metal binding site [ion binding]; other site 246200010831 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 246200010832 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 246200010833 active site 246200010834 metal binding site [ion binding]; metal-binding site 246200010835 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 246200010836 GTPase RsgA; Reviewed; Region: PRK01889 246200010837 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 246200010838 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200010839 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200010840 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 246200010841 Predicted metalloprotease [General function prediction only]; Region: COG2321 246200010842 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 246200010843 active site 246200010844 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 246200010845 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 246200010846 Walker A motif; other site 246200010847 ATP binding site [chemical binding]; other site 246200010848 Walker B motif; other site 246200010849 arginine finger; other site 246200010850 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 246200010851 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 246200010852 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 246200010853 Coenzyme A binding pocket [chemical binding]; other site 246200010854 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200010855 Uncharacterized conserved protein [Function unknown]; Region: COG4121 246200010856 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200010857 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 246200010858 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 246200010859 N-acetyl-D-glucosamine binding site [chemical binding]; other site 246200010860 catalytic residue [active] 246200010861 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 246200010862 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 246200010863 dimer interface [polypeptide binding]; other site 246200010864 active site 246200010865 catalytic residue [active] 246200010866 DMSO reductase anchor subunit (DmsC); Region: DmsC; cl17519 246200010867 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 246200010868 4Fe-4S binding domain; Region: Fer4; pfam00037 246200010869 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 246200010870 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 246200010871 molybdopterin cofactor binding site; other site 246200010872 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 246200010873 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 246200010874 putative molybdopterin cofactor binding site; other site 246200010875 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 246200010876 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 246200010877 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 246200010878 PYR/PP interface [polypeptide binding]; other site 246200010879 dimer interface [polypeptide binding]; other site 246200010880 TPP binding site [chemical binding]; other site 246200010881 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 246200010882 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 246200010883 TPP-binding site [chemical binding]; other site 246200010884 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 246200010885 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200010886 DNA-binding site [nucleotide binding]; DNA binding site 246200010887 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 246200010888 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200010889 homodimer interface [polypeptide binding]; other site 246200010890 catalytic residue [active] 246200010891 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 246200010892 Predicted permease; Region: DUF318; cl17795 246200010893 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 246200010894 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 246200010895 B1 nucleotide binding pocket [chemical binding]; other site 246200010896 B2 nucleotide binding pocket [chemical binding]; other site 246200010897 CAS motifs; other site 246200010898 active site 246200010899 recombination protein RecR; Reviewed; Region: recR; PRK00076 246200010900 RecR protein; Region: RecR; pfam02132 246200010901 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 246200010902 putative active site [active] 246200010903 putative metal-binding site [ion binding]; other site 246200010904 tetramer interface [polypeptide binding]; other site 246200010905 hypothetical protein; Validated; Region: PRK00153 246200010906 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200010907 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 246200010908 conserved cys residue [active] 246200010909 Isochorismatase family; Region: Isochorismatase; pfam00857 246200010910 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 246200010911 catalytic triad [active] 246200010912 conserved cis-peptide bond; other site 246200010913 Predicted flavoprotein [General function prediction only]; Region: COG0431 246200010914 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 246200010915 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 246200010916 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 246200010917 putative NAD(P) binding site [chemical binding]; other site 246200010918 homodimer interface [polypeptide binding]; other site 246200010919 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 246200010920 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 246200010921 DNA binding residues [nucleotide binding] 246200010922 putative dimer interface [polypeptide binding]; other site 246200010923 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 246200010924 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 246200010925 ligand binding site [chemical binding]; other site 246200010926 Predicted transcriptional regulator [Transcription]; Region: COG2378 246200010927 HTH domain; Region: HTH_11; pfam08279 246200010928 WYL domain; Region: WYL; pfam13280 246200010929 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200010930 Helix-turn-helix domain; Region: HTH_18; pfam12833 246200010931 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 246200010932 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 246200010933 DNA binding site [nucleotide binding] 246200010934 active site 246200010935 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 246200010936 MarR family; Region: MarR_2; pfam12802 246200010937 Isochorismatase family; Region: Isochorismatase; pfam00857 246200010938 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 246200010939 catalytic triad [active] 246200010940 conserved cis-peptide bond; other site 246200010941 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 246200010942 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 246200010943 minor groove reading motif; other site 246200010944 helix-hairpin-helix signature motif; other site 246200010945 substrate binding pocket [chemical binding]; other site 246200010946 active site 246200010947 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 246200010948 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...; Region: adenosine_kinase; cd01168 246200010949 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 246200010950 substrate binding site [chemical binding]; other site 246200010951 ATP binding site [chemical binding]; other site 246200010952 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 246200010953 MarR family; Region: MarR; pfam01047 246200010954 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 246200010955 EamA-like transporter family; Region: EamA; pfam00892 246200010956 EamA-like transporter family; Region: EamA; pfam00892 246200010957 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 246200010958 putative active site [active] 246200010959 Ap4A binding site [chemical binding]; other site 246200010960 nudix motif; other site 246200010961 putative metal binding site [ion binding]; other site 246200010962 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 246200010963 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 246200010964 active site 246200010965 FMN binding site [chemical binding]; other site 246200010966 2,4-decadienoyl-CoA binding site; other site 246200010967 catalytic residue [active] 246200010968 4Fe-4S cluster binding site [ion binding]; other site 246200010969 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 246200010970 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 246200010971 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 246200010972 NIPSNAP; Region: NIPSNAP; pfam07978 246200010973 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 246200010974 Predicted permeases [General function prediction only]; Region: COG0679 246200010975 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200010976 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200010977 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 246200010978 putative effector binding pocket; other site 246200010979 dimerization interface [polypeptide binding]; other site 246200010980 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 246200010981 Sulfatase; Region: Sulfatase; cl17466 246200010982 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 246200010983 phenylalanyl-tRNA synthetase, alpha subunit; Region: pheS; TIGR00468 246200010984 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 246200010985 dimer interface [polypeptide binding]; other site 246200010986 motif 1; other site 246200010987 active site 246200010988 motif 2; other site 246200010989 motif 3; other site 246200010990 Cupin domain; Region: Cupin_2; pfam07883 246200010991 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 246200010992 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200010993 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 246200010994 probable polyamine oxidase; Region: PLN02268 246200010995 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 246200010996 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 246200010997 23S rRNA binding site [nucleotide binding]; other site 246200010998 L21 binding site [polypeptide binding]; other site 246200010999 L13 binding site [polypeptide binding]; other site 246200011000 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 246200011001 pyruvate kinase; Provisional; Region: PRK06247 246200011002 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 246200011003 domain interfaces; other site 246200011004 active site 246200011005 N-formylglutamate amidohydrolase; Region: FGase; cl01522 246200011006 Protein of unknown function (DUF1244); Region: DUF1244; pfam06844 246200011007 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 246200011008 CoenzymeA binding site [chemical binding]; other site 246200011009 subunit interaction site [polypeptide binding]; other site 246200011010 PHB binding site; other site 246200011011 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 246200011012 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 246200011013 homodimer interface [polypeptide binding]; other site 246200011014 substrate-cofactor binding pocket; other site 246200011015 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200011016 catalytic residue [active] 246200011017 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 246200011018 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 246200011019 active site 246200011020 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 246200011021 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 246200011022 short chain dehydrogenase; Provisional; Region: PRK07478 246200011023 classical (c) SDRs; Region: SDR_c; cd05233 246200011024 NAD(P) binding site [chemical binding]; other site 246200011025 active site 246200011026 PA14 domain; Region: PA14; cl08459 246200011027 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200011028 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 246200011029 putative DNA binding site [nucleotide binding]; other site 246200011030 putative Zn2+ binding site [ion binding]; other site 246200011031 AsnC family; Region: AsnC_trans_reg; pfam01037 246200011032 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 246200011033 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 246200011034 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 246200011035 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200011036 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 246200011037 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 246200011038 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 246200011039 Transglycosylase SLT domain; Region: SLT_2; pfam13406 246200011040 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 246200011041 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 246200011042 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 246200011043 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 246200011044 dimer interface [polypeptide binding]; other site 246200011045 conserved gate region; other site 246200011046 putative PBP binding loops; other site 246200011047 ABC-ATPase subunit interface; other site 246200011048 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 246200011049 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 246200011050 Walker A/P-loop; other site 246200011051 ATP binding site [chemical binding]; other site 246200011052 Q-loop/lid; other site 246200011053 ABC transporter signature motif; other site 246200011054 Walker B; other site 246200011055 D-loop; other site 246200011056 H-loop/switch region; other site 246200011057 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; cl17432 246200011058 NMT1/THI5 like; Region: NMT1; pfam09084 246200011059 Transcriptional regulators [Transcription]; Region: GntR; COG1802 246200011060 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200011061 DNA-binding site [nucleotide binding]; DNA binding site 246200011062 FCD domain; Region: FCD; pfam07729 246200011063 Protein of unknown function DUF45; Region: DUF45; pfam01863 246200011064 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 246200011065 TIGR02300 family protein; Region: FYDLN_acid 246200011066 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 246200011067 DNA-binding site [nucleotide binding]; DNA binding site 246200011068 RNA-binding motif; other site 246200011069 glutamate--cysteine ligase; Region: PLN02611 246200011070 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 246200011071 Coenzyme A binding pocket [chemical binding]; other site 246200011072 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 246200011073 RNA methyltransferase, RsmE family; Region: TIGR00046 246200011074 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 246200011075 UbiA prenyltransferase family; Region: UbiA; pfam01040 246200011076 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 246200011077 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 246200011078 ligand binding site [chemical binding]; other site 246200011079 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 246200011080 MoaE homodimer interface [polypeptide binding]; other site 246200011081 MoaD interaction [polypeptide binding]; other site 246200011082 active site residues [active] 246200011083 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 246200011084 MoaE interaction surface [polypeptide binding]; other site 246200011085 MoeB interaction surface [polypeptide binding]; other site 246200011086 thiocarboxylated glycine; other site 246200011087 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 246200011088 Beta-lactamase; Region: Beta-lactamase; pfam00144 246200011089 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 246200011090 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 246200011091 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 246200011092 GIY-YIG motif/motif A; other site 246200011093 active site 246200011094 catalytic site [active] 246200011095 putative DNA binding site [nucleotide binding]; other site 246200011096 metal binding site [ion binding]; metal-binding site 246200011097 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 246200011098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200011099 short chain dehydrogenase; Provisional; Region: PRK09134 246200011100 NAD(P) binding site [chemical binding]; other site 246200011101 active site 246200011102 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 246200011103 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 246200011104 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 246200011105 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 246200011106 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 246200011107 tandem repeat interface [polypeptide binding]; other site 246200011108 oligomer interface [polypeptide binding]; other site 246200011109 active site residues [active] 246200011110 ABC-2 type transporter; Region: ABC2_membrane; cl17235 246200011111 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 246200011112 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 246200011113 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 246200011114 Walker A/P-loop; other site 246200011115 ATP binding site [chemical binding]; other site 246200011116 Q-loop/lid; other site 246200011117 ABC transporter signature motif; other site 246200011118 Walker B; other site 246200011119 D-loop; other site 246200011120 H-loop/switch region; other site 246200011121 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 246200011122 putative hydrophobic ligand binding site [chemical binding]; other site 246200011123 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200011124 EamA-like transporter family; Region: EamA; pfam00892 246200011125 EamA-like transporter family; Region: EamA; cl17759 246200011126 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 246200011127 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200011128 Predicted transcriptional regulators [Transcription]; Region: COG1733 246200011129 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 246200011130 enoyl-CoA hydratase; Provisional; Region: PRK12478 246200011131 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 246200011132 substrate binding site [chemical binding]; other site 246200011133 oxyanion hole (OAH) forming residues; other site 246200011134 trimer interface [polypeptide binding]; other site 246200011135 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 246200011136 CoA-transferase family III; Region: CoA_transf_3; pfam02515 246200011137 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 246200011138 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 246200011139 substrate binding site [chemical binding]; other site 246200011140 active site 246200011141 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 246200011142 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; cl17708 246200011143 domain interfaces; other site 246200011144 active site 246200011145 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 246200011146 cyclase homology domain; Region: CHD; cd07302 246200011147 nucleotidyl binding site; other site 246200011148 metal binding site [ion binding]; metal-binding site 246200011149 dimer interface [polypeptide binding]; other site 246200011150 Predicted integral membrane protein [Function unknown]; Region: COG5616 246200011151 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 246200011152 Fatty acid desaturase; Region: FA_desaturase; pfam00487 246200011153 putative di-iron ligands [ion binding]; other site 246200011154 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 246200011155 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 246200011156 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 246200011157 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 246200011158 classical (c) SDRs; Region: SDR_c; cd05233 246200011159 NAD(P) binding site [chemical binding]; other site 246200011160 active site 246200011161 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 246200011162 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 246200011163 S-adenosylmethionine binding site [chemical binding]; other site 246200011164 Uncharacterized conserved protein [Function unknown]; Region: COG2127 246200011165 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 246200011166 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 246200011167 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 246200011168 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 246200011169 putative active site [active] 246200011170 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 246200011171 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 246200011172 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 246200011173 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 246200011174 DctM-like transporters; Region: DctM; pfam06808 246200011175 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 246200011176 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200011177 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200011178 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 246200011179 octamer interface [polypeptide binding]; other site 246200011180 active site 246200011181 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200011182 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 246200011183 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 246200011184 dimerization interface [polypeptide binding]; other site 246200011185 glycosyltransferase; Provisional; Region: PRK13481 246200011186 Transglycosylase; Region: Transgly; pfam00912 246200011187 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 246200011188 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 246200011189 Multicopper oxidase; Region: Cu-oxidase; pfam00394 246200011190 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 246200011191 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 246200011192 Pretoxin HINT domain; Region: PT-HINT; pfam07591 246200011193 thioester formation/cholesterol transfer; other site 246200011194 protein-splicing catalytic site; other site 246200011195 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 246200011196 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 246200011197 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 246200011198 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 246200011199 Peptidase M15; Region: Peptidase_M15_3; pfam08291 246200011200 acetylornithine deacetylase; Provisional; Region: PRK07522 246200011201 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 246200011202 metal binding site [ion binding]; metal-binding site 246200011203 putative dimer interface [polypeptide binding]; other site 246200011204 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200011205 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200011206 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 246200011207 putative substrate binding pocket [chemical binding]; other site 246200011208 dimerization interface [polypeptide binding]; other site 246200011209 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 246200011210 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 246200011211 [2Fe-2S] cluster binding site [ion binding]; other site 246200011212 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 246200011213 putative alpha subunit interface [polypeptide binding]; other site 246200011214 putative active site [active] 246200011215 putative substrate binding site [chemical binding]; other site 246200011216 Fe binding site [ion binding]; other site 246200011217 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 246200011218 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 246200011219 homotrimer interaction site [polypeptide binding]; other site 246200011220 putative active site [active] 246200011221 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 246200011222 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 246200011223 [2Fe-2S] cluster binding site [ion binding]; other site 246200011224 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 246200011225 putative alpha subunit interface [polypeptide binding]; other site 246200011226 putative active site [active] 246200011227 putative substrate binding site [chemical binding]; other site 246200011228 Fe binding site [ion binding]; other site 246200011229 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 246200011230 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 246200011231 Transcriptional regulators [Transcription]; Region: PurR; COG1609 246200011232 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 246200011233 DNA binding site [nucleotide binding] 246200011234 domain linker motif; other site 246200011235 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 246200011236 putative dimerization interface [polypeptide binding]; other site 246200011237 putative ligand binding site [chemical binding]; other site 246200011238 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 246200011239 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 246200011240 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 246200011241 tyrosine decarboxylase; Region: PLN02880 246200011242 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 246200011243 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200011244 catalytic residue [active] 246200011245 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 246200011246 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 246200011247 tetramer interface [polypeptide binding]; other site 246200011248 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 246200011249 tetramer interface [polypeptide binding]; other site 246200011250 active site 246200011251 metal binding site [ion binding]; metal-binding site 246200011252 MarR family; Region: MarR_2; cl17246 246200011253 Transcriptional regulators [Transcription]; Region: MarR; COG1846 246200011254 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 246200011255 Cupin domain; Region: Cupin_2; pfam07883 246200011256 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 246200011257 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 246200011258 salicylate hydroxylase; Provisional; Region: PRK08163 246200011259 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 246200011260 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200011261 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200011262 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 246200011263 DctM-like transporters; Region: DctM; pfam06808 246200011264 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 246200011265 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 246200011266 feruloyl-CoA synthase; Reviewed; Region: PRK08180 246200011267 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 246200011268 acyl-activating enzyme (AAE) consensus motif; other site 246200011269 AMP binding site [chemical binding]; other site 246200011270 active site 246200011271 CoA binding site [chemical binding]; other site 246200011272 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 246200011273 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 246200011274 acyl-activating enzyme (AAE) consensus motif; other site 246200011275 AMP binding site [chemical binding]; other site 246200011276 active site 246200011277 CoA binding site [chemical binding]; other site 246200011278 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200011279 Domain of unknown function (DUF309); Region: DUF309; pfam03745 246200011280 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 246200011281 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 246200011282 substrate binding site [chemical binding]; other site 246200011283 oxyanion hole (OAH) forming residues; other site 246200011284 trimer interface [polypeptide binding]; other site 246200011285 benzoyl-CoA oxygenase, B subunit; Region: benzo_boxB; TIGR03225 246200011286 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 246200011287 4Fe-4S binding domain; Region: Fer4; pfam00037 246200011288 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 246200011289 dimerization interface [polypeptide binding]; other site 246200011290 FAD binding pocket [chemical binding]; other site 246200011291 FAD binding motif [chemical binding]; other site 246200011292 catalytic residues [active] 246200011293 NAD binding pocket [chemical binding]; other site 246200011294 phosphate binding motif [ion binding]; other site 246200011295 beta-alpha-beta structure motif; other site 246200011296 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 246200011297 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 246200011298 sequence-specific DNA binding site [nucleotide binding]; other site 246200011299 salt bridge; other site 246200011300 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 246200011301 ADP binding site [chemical binding]; other site 246200011302 magnesium binding site [ion binding]; other site 246200011303 putative shikimate binding site; other site 246200011304 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria; Region: PBP1_SBP_like_2; cd06328 246200011305 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 246200011306 putative ligand binding site [chemical binding]; other site 246200011307 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200011308 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 246200011309 Walker A/P-loop; other site 246200011310 ATP binding site [chemical binding]; other site 246200011311 Q-loop/lid; other site 246200011312 ABC transporter signature motif; other site 246200011313 Walker B; other site 246200011314 D-loop; other site 246200011315 H-loop/switch region; other site 246200011316 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200011317 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 246200011318 Walker A/P-loop; other site 246200011319 ATP binding site [chemical binding]; other site 246200011320 Q-loop/lid; other site 246200011321 ABC transporter signature motif; other site 246200011322 Walker B; other site 246200011323 D-loop; other site 246200011324 H-loop/switch region; other site 246200011325 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 246200011326 TM-ABC transporter signature motif; other site 246200011327 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 246200011328 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 246200011329 TM-ABC transporter signature motif; other site 246200011330 Protein of unknown function (DUF3095); Region: DUF3095; pfam11294 246200011331 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 246200011332 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200011333 putative substrate translocation pore; other site 246200011334 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 246200011335 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 246200011336 conserved hypothetical protein; Region: TIGR02231 246200011337 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 246200011338 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 246200011339 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 246200011340 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 246200011341 active site clefts [active] 246200011342 zinc binding site [ion binding]; other site 246200011343 dimer interface [polypeptide binding]; other site 246200011344 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 246200011345 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 246200011346 interface (dimer of trimers) [polypeptide binding]; other site 246200011347 Substrate-binding/catalytic site; other site 246200011348 Zn-binding sites [ion binding]; other site 246200011349 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 246200011350 NlpC/P60 family; Region: NLPC_P60; cl17555 246200011351 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 246200011352 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 246200011353 active site residue [active] 246200011354 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 246200011355 active site residue [active] 246200011356 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 246200011357 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 246200011358 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200011359 homodimer interface [polypeptide binding]; other site 246200011360 catalytic residue [active] 246200011361 Predicted transcriptional regulator [Transcription]; Region: COG1959 246200011362 Transcriptional regulator; Region: Rrf2; pfam02082 246200011363 Transcriptional regulator; Region: Rrf2; cl17282 246200011364 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 246200011365 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 246200011366 Nitrogen regulatory protein P-II; Region: P-II; smart00938 246200011367 Transglycosylase; Region: Transgly; pfam00912 246200011368 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 246200011369 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 246200011370 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 246200011371 VacJ like lipoprotein; Region: VacJ; cl01073 246200011372 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 246200011373 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 246200011374 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 246200011375 Walker A/P-loop; other site 246200011376 ATP binding site [chemical binding]; other site 246200011377 Q-loop/lid; other site 246200011378 ABC transporter signature motif; other site 246200011379 Walker B; other site 246200011380 D-loop; other site 246200011381 H-loop/switch region; other site 246200011382 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 246200011383 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 246200011384 HlyD family secretion protein; Region: HlyD_3; pfam13437 246200011385 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 246200011386 homotrimer interaction site [polypeptide binding]; other site 246200011387 putative active site [active] 246200011388 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 246200011389 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 246200011390 active site 246200011391 catalytic site [active] 246200011392 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 246200011393 Protein of unknown function, DUF482; Region: DUF482; pfam04339 246200011394 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 246200011395 aromatic arch; other site 246200011396 DCoH dimer interaction site [polypeptide binding]; other site 246200011397 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 246200011398 DCoH tetramer interaction site [polypeptide binding]; other site 246200011399 substrate binding site [chemical binding]; other site 246200011400 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 246200011401 DNA binding residues [nucleotide binding] 246200011402 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 246200011403 putative dimer interface [polypeptide binding]; other site 246200011404 putative metal binding residues [ion binding]; other site 246200011405 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 246200011406 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200011407 putative substrate translocation pore; other site 246200011408 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 246200011409 catalytic triad [active] 246200011410 dimer interface [polypeptide binding]; other site 246200011411 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 246200011412 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 246200011413 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 246200011414 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 246200011415 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 246200011416 S-adenosylmethionine binding site [chemical binding]; other site 246200011417 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 246200011418 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 246200011419 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 246200011420 methionine sulfoxide reductase A; Provisional; Region: PRK14054 246200011421 methionine sulfoxide reductase B; Provisional; Region: PRK00222 246200011422 SelR domain; Region: SelR; pfam01641 246200011423 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 246200011424 catalytic residues [active] 246200011425 dimer interface [polypeptide binding]; other site 246200011426 EamA-like transporter family; Region: EamA; pfam00892 246200011427 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 246200011428 IHF dimer interface [polypeptide binding]; other site 246200011429 IHF - DNA interface [nucleotide binding]; other site 246200011430 AMP nucleosidase; Provisional; Region: PRK08292 246200011431 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 246200011432 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 246200011433 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 246200011434 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 246200011435 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 246200011436 active site 246200011437 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 246200011438 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 246200011439 active site 246200011440 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200011441 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200011442 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 246200011443 dimerization interface [polypeptide binding]; other site 246200011444 hypothetical protein; Provisional; Region: PRK07490 246200011445 intersubunit interface [polypeptide binding]; other site 246200011446 active site 246200011447 Zn2+ binding site [ion binding]; other site 246200011448 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 246200011449 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 246200011450 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 246200011451 Ligand Binding Site [chemical binding]; other site 246200011452 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 246200011453 active site 246200011454 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 246200011455 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 246200011456 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 246200011457 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 246200011458 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 246200011459 S-adenosylmethionine binding site [chemical binding]; other site 246200011460 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 246200011461 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 246200011462 putative NAD(P) binding site [chemical binding]; other site 246200011463 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 246200011464 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 246200011465 ligand binding site [chemical binding]; other site 246200011466 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 246200011467 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 246200011468 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 246200011469 Coenzyme A binding pocket [chemical binding]; other site 246200011470 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 246200011471 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 246200011472 putative MPT binding site; other site 246200011473 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 246200011474 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 246200011475 active site 246200011476 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 246200011477 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 246200011478 active site 246200011479 motif I; other site 246200011480 motif II; other site 246200011481 epoxyqueuosine reductase; Region: TIGR00276 246200011482 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 246200011483 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 246200011484 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 246200011485 C-terminal domain interface [polypeptide binding]; other site 246200011486 GSH binding site (G-site) [chemical binding]; other site 246200011487 dimer interface [polypeptide binding]; other site 246200011488 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 246200011489 N-terminal domain interface [polypeptide binding]; other site 246200011490 dimer interface [polypeptide binding]; other site 246200011491 substrate binding pocket (H-site) [chemical binding]; other site 246200011492 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 246200011493 Transglycosylase; Region: Transgly; pfam00912 246200011494 Hint domain; Region: Hint_2; pfam13403 246200011495 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 246200011496 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 246200011497 active site 246200011498 dimer interface [polypeptide binding]; other site 246200011499 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 246200011500 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 246200011501 active site 246200011502 FMN binding site [chemical binding]; other site 246200011503 substrate binding site [chemical binding]; other site 246200011504 3Fe-4S cluster binding site [ion binding]; other site 246200011505 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 246200011506 domain interface; other site 246200011507 Uncharacterized conserved protein [Function unknown]; Region: COG3791 246200011508 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 246200011509 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 246200011510 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 246200011511 Bacitracin resistance protein BacA; Region: BacA; pfam02673 246200011512 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 246200011513 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 246200011514 putative NAD(P) binding site [chemical binding]; other site 246200011515 active site 246200011516 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 246200011517 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 246200011518 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 246200011519 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 246200011520 dimer interface [polypeptide binding]; other site 246200011521 conserved gate region; other site 246200011522 putative PBP binding loops; other site 246200011523 ABC-ATPase subunit interface; other site 246200011524 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 246200011525 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 246200011526 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 246200011527 dimer interface [polypeptide binding]; other site 246200011528 conserved gate region; other site 246200011529 putative PBP binding loops; other site 246200011530 ABC-ATPase subunit interface; other site 246200011531 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 246200011532 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200011533 Walker A/P-loop; other site 246200011534 ATP binding site [chemical binding]; other site 246200011535 Q-loop/lid; other site 246200011536 ABC transporter signature motif; other site 246200011537 Walker B; other site 246200011538 D-loop; other site 246200011539 H-loop/switch region; other site 246200011540 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 246200011541 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 246200011542 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 246200011543 Walker A/P-loop; other site 246200011544 ATP binding site [chemical binding]; other site 246200011545 Q-loop/lid; other site 246200011546 ABC transporter signature motif; other site 246200011547 Walker B; other site 246200011548 D-loop; other site 246200011549 H-loop/switch region; other site 246200011550 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 246200011551 cell density-dependent motility repressor; Provisional; Region: PRK10082 246200011552 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200011553 The link domain is a hyaluronan (HA)-binding domain. It functions to mediate adhesive interactions during inflammatory leukocyte homing and tumor metastasis. It is found in the CD44 receptor and in human TSG-6. TSG-6 is the protein product of the tumor...; Region: Link_Domain; cl02612 246200011554 LysR substrate binding domain; Region: LysR_substrate; pfam03466 246200011555 Predicted permeases [General function prediction only]; Region: COG0795 246200011556 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 246200011557 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; pfam09585 246200011558 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; pfam09585 246200011559 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 246200011560 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200011561 Walker A/P-loop; other site 246200011562 ATP binding site [chemical binding]; other site 246200011563 Q-loop/lid; other site 246200011564 ABC transporter signature motif; other site 246200011565 Walker B; other site 246200011566 D-loop; other site 246200011567 H-loop/switch region; other site 246200011568 TOBE domain; Region: TOBE_2; pfam08402 246200011569 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 246200011570 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 246200011571 Walker A/P-loop; other site 246200011572 ATP binding site [chemical binding]; other site 246200011573 Q-loop/lid; other site 246200011574 ABC transporter signature motif; other site 246200011575 Walker B; other site 246200011576 D-loop; other site 246200011577 H-loop/switch region; other site 246200011578 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 246200011579 dimer interface [polypeptide binding]; other site 246200011580 conserved gate region; other site 246200011581 putative PBP binding loops; other site 246200011582 ABC-ATPase subunit interface; other site 246200011583 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 246200011584 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 246200011585 dimer interface [polypeptide binding]; other site 246200011586 conserved gate region; other site 246200011587 putative PBP binding loops; other site 246200011588 ABC-ATPase subunit interface; other site 246200011589 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 246200011590 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 246200011591 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 246200011592 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 246200011593 Walker A motif; other site 246200011594 ATP binding site [chemical binding]; other site 246200011595 Walker B motif; other site 246200011596 arginine finger; other site 246200011597 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 246200011598 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 246200011599 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 246200011600 E3 interaction surface; other site 246200011601 lipoyl attachment site [posttranslational modification]; other site 246200011602 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 246200011603 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 246200011604 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 246200011605 alpha subunit interface [polypeptide binding]; other site 246200011606 TPP binding site [chemical binding]; other site 246200011607 heterodimer interface [polypeptide binding]; other site 246200011608 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 246200011609 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 246200011610 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 246200011611 tetramer interface [polypeptide binding]; other site 246200011612 TPP-binding site [chemical binding]; other site 246200011613 heterodimer interface [polypeptide binding]; other site 246200011614 phosphorylation loop region [posttranslational modification] 246200011615 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 246200011616 Protein of unknown function (DUF779); Region: DUF779; cl01432 246200011617 DNA-directed RNA polymerase specialized sigma subunit, sigma54 homolog [Transcription]; Region: RpoN; COG1508 246200011618 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 246200011619 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 246200011620 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 246200011621 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 246200011622 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 246200011623 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200011624 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 246200011625 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200011626 active site 246200011627 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 246200011628 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 246200011629 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 246200011630 substrate binding site [chemical binding]; other site 246200011631 oxyanion hole (OAH) forming residues; other site 246200011632 trimer interface [polypeptide binding]; other site 246200011633 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 246200011634 SmpB-tmRNA interface; other site 246200011635 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 246200011636 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 246200011637 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 246200011638 dimerization interface [polypeptide binding]; other site 246200011639 putative DNA binding site [nucleotide binding]; other site 246200011640 putative Zn2+ binding site [ion binding]; other site 246200011641 phosphoglyceromutase; Provisional; Region: PRK05434 246200011642 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 246200011643 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 246200011644 Peptidase family M23; Region: Peptidase_M23; pfam01551 246200011645 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 246200011646 C-terminal peptidase (prc); Region: prc; TIGR00225 246200011647 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 246200011648 protein binding site [polypeptide binding]; other site 246200011649 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 246200011650 Catalytic dyad [active] 246200011651 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 246200011652 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 246200011653 putative ABC transporter ATP-binding protein YbbL; Provisional; Region: PRK10247 246200011654 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 246200011655 Q-loop/lid; other site 246200011656 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200011657 Q-loop/lid; other site 246200011658 ABC transporter signature motif; other site 246200011659 Walker B; other site 246200011660 D-loop; other site 246200011661 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 246200011662 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 246200011663 ligand binding site [chemical binding]; other site 246200011664 flexible hinge region; other site 246200011665 CAAX protease self-immunity; Region: Abi; pfam02517 246200011666 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 246200011667 RNA polymerases M/15 Kd subunit; Region: RNA_POL_M_15KD; cl02717 246200011668 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 246200011669 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 246200011670 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 246200011671 Predicted ATPase [General function prediction only]; Region: COG1485 246200011672 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 246200011673 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200011674 putative substrate translocation pore; other site 246200011675 ornithine cyclodeaminase; Validated; Region: PRK06141 246200011676 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 246200011677 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 246200011678 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 246200011679 motif II; other site 246200011680 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 246200011681 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 246200011682 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 246200011683 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 246200011684 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 246200011685 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 246200011686 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 246200011687 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 246200011688 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 246200011689 S-formylglutathione hydrolase; Region: PLN02442 246200011690 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 246200011691 peptidase T; Region: peptidase-T; TIGR01882 246200011692 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 246200011693 metal binding site [ion binding]; metal-binding site 246200011694 dimer interface [polypeptide binding]; other site 246200011695 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 246200011696 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 246200011697 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 246200011698 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 246200011699 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 246200011700 ATP binding site [chemical binding]; other site 246200011701 putative Mg++ binding site [ion binding]; other site 246200011702 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 246200011703 nucleotide binding region [chemical binding]; other site 246200011704 ATP-binding site [chemical binding]; other site 246200011705 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 246200011706 RNA binding site [nucleotide binding]; other site 246200011707 dihydrodipicolinate reductase; Provisional; Region: PRK00048 246200011708 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 246200011709 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 246200011710 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 246200011711 Predicted periplasmic protein [Function unknown]; Region: COG3698 246200011712 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 246200011713 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 246200011714 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 246200011715 RNA binding site [nucleotide binding]; other site 246200011716 active site 246200011717 Protein of unknown function (DUF1643); Region: DUF1643; pfam07799 246200011718 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200011719 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 246200011720 16S/18S rRNA binding site [nucleotide binding]; other site 246200011721 S13e-L30e interaction site [polypeptide binding]; other site 246200011722 25S rRNA binding site [nucleotide binding]; other site 246200011723 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200011724 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200011725 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 246200011726 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 246200011727 diiron binding motif [ion binding]; other site 246200011728 Uncharacterized conserved protein [Function unknown]; Region: COG1633 246200011729 CCC1-related protein family; Region: CCC1_like_1; cd02437 246200011730 Predicted permeases [General function prediction only]; Region: COG0679 246200011731 DNA polymerase I; Provisional; Region: PRK05755 246200011732 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 246200011733 active site 246200011734 metal binding site 1 [ion binding]; metal-binding site 246200011735 putative 5' ssDNA interaction site; other site 246200011736 metal binding site 3; metal-binding site 246200011737 metal binding site 2 [ion binding]; metal-binding site 246200011738 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 246200011739 putative DNA binding site [nucleotide binding]; other site 246200011740 putative metal binding site [ion binding]; other site 246200011741 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 246200011742 active site 246200011743 catalytic site [active] 246200011744 substrate binding site [chemical binding]; other site 246200011745 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 246200011746 active site 246200011747 DNA binding site [nucleotide binding] 246200011748 catalytic site [active] 246200011749 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 246200011750 Zinc-finger domain; Region: zf-CHCC; pfam10276 246200011751 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 246200011752 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200011753 Walker A/P-loop; other site 246200011754 ATP binding site [chemical binding]; other site 246200011755 Q-loop/lid; other site 246200011756 ABC transporter signature motif; other site 246200011757 Walker B; other site 246200011758 D-loop; other site 246200011759 H-loop/switch region; other site 246200011760 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 246200011761 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 246200011762 Protein of unknown function (DUF1203); Region: DUF1203; pfam06718 246200011763 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 246200011764 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 246200011765 substrate binding site [chemical binding]; other site 246200011766 catalytic Zn binding site [ion binding]; other site 246200011767 NAD binding site [chemical binding]; other site 246200011768 structural Zn binding site [ion binding]; other site 246200011769 dimer interface [polypeptide binding]; other site 246200011770 HemY protein N-terminus; Region: HemY_N; pfam07219 246200011771 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 246200011772 Nucleopolyhedrovirus P10 protein; Region: NPV_P10; cl17484 246200011773 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 246200011774 active site 246200011775 UGMP family protein; Validated; Region: PRK09604 246200011776 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 246200011777 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 246200011778 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 246200011779 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 246200011780 YciI-like protein; Reviewed; Region: PRK12863 246200011781 EVE domain; Region: EVE; cl00728 246200011782 Protein of unknown function (DUF1761); Region: DUF1761; pfam08570 246200011783 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 246200011784 Bacterial protein of unknown function (DUF922); Region: DUF922; pfam06037 246200011785 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 246200011786 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 246200011787 homotetramer interface [polypeptide binding]; other site 246200011788 ligand binding site [chemical binding]; other site 246200011789 catalytic site [active] 246200011790 NAD binding site [chemical binding]; other site 246200011791 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 246200011792 Protein of unknown function (DUF563); Region: DUF563; pfam04577 246200011793 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 246200011794 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 246200011795 active site 246200011796 phosphorylation site [posttranslational modification] 246200011797 intermolecular recognition site; other site 246200011798 dimerization interface [polypeptide binding]; other site 246200011799 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 246200011800 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 246200011801 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 246200011802 Cu(I) binding site [ion binding]; other site 246200011803 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 246200011804 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 246200011805 dimer interface [polypeptide binding]; other site 246200011806 phosphorylation site [posttranslational modification] 246200011807 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 246200011808 ATP binding site [chemical binding]; other site 246200011809 Mg2+ binding site [ion binding]; other site 246200011810 G-X-G motif; other site 246200011811 PAS fold; Region: PAS_7; pfam12860 246200011812 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 246200011813 Walker A motif; other site 246200011814 ATP binding site [chemical binding]; other site 246200011815 Walker B motif; other site 246200011816 arginine finger; other site 246200011817 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 246200011818 Phosphotransferase enzyme family; Region: APH; pfam01636 246200011819 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 246200011820 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 246200011821 Substrate binding site; other site 246200011822 metal-binding site 246200011823 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 246200011824 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 246200011825 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 246200011826 Part of AAA domain; Region: AAA_19; pfam13245 246200011827 Family description; Region: UvrD_C_2; pfam13538 246200011828 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 246200011829 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 246200011830 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 246200011831 catalytic residues [active] 246200011832 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; pfam09585 246200011833 Conserved hypothetical protein (Lin0512_fam); Region: Lin0512_fam; pfam09585 246200011834 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 246200011835 dimerization interface [polypeptide binding]; other site 246200011836 putative DNA binding site [nucleotide binding]; other site 246200011837 putative Zn2+ binding site [ion binding]; other site 246200011838 Low molecular weight phosphatase family; Region: LMWPc; cd00115 246200011839 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 246200011840 active site 246200011841 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 246200011842 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 246200011843 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 246200011844 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 246200011845 active site 246200011846 HslU subunit interaction site [polypeptide binding]; other site 246200011847 Electron transfer DM13; Region: DM13; pfam10517 246200011848 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 246200011849 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 246200011850 Walker A motif; other site 246200011851 ATP binding site [chemical binding]; other site 246200011852 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 246200011853 Walker B motif; other site 246200011854 arginine finger; other site 246200011855 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 246200011856 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 246200011857 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 246200011858 Smr domain; Region: Smr; pfam01713 246200011859 MltA specific insert domain; Region: MltA; smart00925 246200011860 3D domain; Region: 3D; pfam06725 246200011861 Tim44-like domain; Region: Tim44; pfam04280 246200011862 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 246200011863 Preprotein translocase subunit SecB; Region: SecB; pfam02556 246200011864 SecA binding site; other site 246200011865 Preprotein binding site; other site 246200011866 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 246200011867 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 246200011868 active site 246200011869 catalytic site [active] 246200011870 substrate binding site [chemical binding]; other site 246200011871 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 246200011872 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 246200011873 CoA-binding site [chemical binding]; other site 246200011874 ATP-binding [chemical binding]; other site 246200011875 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 246200011876 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 246200011877 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 246200011878 shikimate binding site; other site 246200011879 NAD(P) binding site [chemical binding]; other site 246200011880 Maf-like protein; Region: Maf; pfam02545 246200011881 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 246200011882 active site 246200011883 dimer interface [polypeptide binding]; other site 246200011884 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 246200011885 transcription termination factor Rho; Provisional; Region: rho; PRK09376 246200011886 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 246200011887 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 246200011888 RNA binding site [nucleotide binding]; other site 246200011889 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 246200011890 multimer interface [polypeptide binding]; other site 246200011891 Walker A motif; other site 246200011892 ATP binding site [chemical binding]; other site 246200011893 Walker B motif; other site 246200011894 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 246200011895 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 246200011896 trmE is a tRNA modification GTPase; Region: trmE; cd04164 246200011897 G1 box; other site 246200011898 GTP/Mg2+ binding site [chemical binding]; other site 246200011899 Switch I region; other site 246200011900 G2 box; other site 246200011901 Switch II region; other site 246200011902 G3 box; other site 246200011903 G4 box; other site 246200011904 G5 box; other site 246200011905 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 246200011906 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 246200011907 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 246200011908 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 246200011909 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 246200011910 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 246200011911 FeS/SAM binding site; other site 246200011912 TRAM domain; Region: TRAM; cl01282 246200011913 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 246200011914 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 246200011915 ligand binding site [chemical binding]; other site 246200011916 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 246200011917 PhoH-like protein; Region: PhoH; pfam02562 246200011918 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 246200011919 FOG: CBS domain [General function prediction only]; Region: COG0517 246200011920 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 246200011921 Transporter associated domain; Region: CorC_HlyC; smart01091 246200011922 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 246200011923 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 246200011924 putative active site [active] 246200011925 catalytic triad [active] 246200011926 putative dimer interface [polypeptide binding]; other site 246200011927 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 246200011928 S-adenosylmethionine synthetase; Validated; Region: PRK05250 246200011929 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 246200011930 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 246200011931 topology modulation protein; Reviewed; Region: PRK08118 246200011932 AAA domain; Region: AAA_17; pfam13207 246200011933 Predicted periplasmic protein [Function unknown]; Region: COG3904 246200011934 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 246200011935 S-adenosylmethionine binding site [chemical binding]; other site 246200011936 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 246200011937 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 246200011938 hinge; other site 246200011939 active site 246200011940 cytidylate kinase; Provisional; Region: cmk; PRK00023 246200011941 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 246200011942 CMP-binding site; other site 246200011943 The sites determining sugar specificity; other site 246200011944 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 246200011945 Protein of unknown function (DUF819); Region: DUF819; cl02317 246200011946 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 246200011947 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 246200011948 dimer interface [polypeptide binding]; other site 246200011949 active site 246200011950 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 246200011951 substrate binding site [chemical binding]; other site 246200011952 catalytic residue [active] 246200011953 FAD-linked oxidoreductase; Region: bact_FAD_ox; TIGR01679 246200011954 FAD binding domain; Region: FAD_binding_4; pfam01565 246200011955 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 246200011956 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 246200011957 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200011958 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200011959 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 246200011960 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 246200011961 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 246200011962 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 246200011963 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 246200011964 putative active site [active] 246200011965 putative metal binding site [ion binding]; other site 246200011966 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 246200011967 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 246200011968 NAD binding site [chemical binding]; other site 246200011969 catalytic residues [active] 246200011970 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 246200011971 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 246200011972 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 246200011973 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 246200011974 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 246200011975 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 246200011976 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 246200011977 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 246200011978 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 246200011979 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 246200011980 catalytic loop [active] 246200011981 iron binding site [ion binding]; other site 246200011982 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 246200011983 FAD binding pocket [chemical binding]; other site 246200011984 FAD binding motif [chemical binding]; other site 246200011985 phosphate binding motif [ion binding]; other site 246200011986 beta-alpha-beta structure motif; other site 246200011987 NAD binding pocket [chemical binding]; other site 246200011988 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 246200011989 FOG: CBS domain [General function prediction only]; Region: COG0517 246200011990 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 246200011991 ApbE family; Region: ApbE; pfam02424 246200011992 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200011993 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 246200011994 DNA binding residues [nucleotide binding] 246200011995 dimerization interface [polypeptide binding]; other site 246200011996 CrcB-like protein; Region: CRCB; pfam02537 246200011997 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 246200011998 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 246200011999 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 246200012000 heterodimer interface [polypeptide binding]; other site 246200012001 active site 246200012002 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; cl17208 246200012003 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 246200012004 active site 246200012005 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 246200012006 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 246200012007 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 246200012008 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200012009 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 246200012010 dimerization interface [polypeptide binding]; other site 246200012011 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 246200012012 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 246200012013 4Fe-4S binding domain; Region: Fer4_5; pfam12801 246200012014 nitrous-oxide reductase, TAT-dependent; Region: nitrous_NosZ_RR; TIGR04244 246200012015 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 246200012016 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 246200012017 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 246200012018 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 246200012019 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 246200012020 Walker A/P-loop; other site 246200012021 ATP binding site [chemical binding]; other site 246200012022 Q-loop/lid; other site 246200012023 ABC transporter signature motif; other site 246200012024 Walker B; other site 246200012025 D-loop; other site 246200012026 H-loop/switch region; other site 246200012027 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 246200012028 NosL; Region: NosL; pfam05573 246200012029 Cytochrome c2 [Energy production and conversion]; Region: COG3474 246200012030 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 246200012031 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 246200012032 non-specific DNA binding site [nucleotide binding]; other site 246200012033 salt bridge; other site 246200012034 sequence-specific DNA binding site [nucleotide binding]; other site 246200012035 Cupin domain; Region: Cupin_2; pfam07883 246200012036 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 246200012037 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200012038 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 246200012039 lipoyl attachment site [posttranslational modification]; other site 246200012040 glycine dehydrogenase; Provisional; Region: PRK05367 246200012041 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 246200012042 tetramer interface [polypeptide binding]; other site 246200012043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012044 catalytic residue [active] 246200012045 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 246200012046 tetramer interface [polypeptide binding]; other site 246200012047 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012048 catalytic residue [active] 246200012049 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200012050 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 246200012051 conserved cys residue [active] 246200012052 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 246200012053 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 246200012054 dimer interface [polypeptide binding]; other site 246200012055 active site 246200012056 heme binding site [chemical binding]; other site 246200012057 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 246200012058 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200012059 aspartate racemase; Region: asp_race; TIGR00035 246200012060 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200012061 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200012062 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200012063 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200012064 Amidinotransferase; Region: Amidinotransf; cl12043 246200012065 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 246200012066 hypothetical protein; Provisional; Region: PRK07524 246200012067 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 246200012068 PYR/PP interface [polypeptide binding]; other site 246200012069 dimer interface [polypeptide binding]; other site 246200012070 TPP binding site [chemical binding]; other site 246200012071 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 246200012072 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 246200012073 TPP-binding site [chemical binding]; other site 246200012074 aspartate aminotransferase; Provisional; Region: PRK05764 246200012075 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 246200012076 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012077 homodimer interface [polypeptide binding]; other site 246200012078 catalytic residue [active] 246200012079 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200012080 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 246200012081 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 246200012082 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200012083 Walker A/P-loop; other site 246200012084 ATP binding site [chemical binding]; other site 246200012085 Q-loop/lid; other site 246200012086 ABC transporter signature motif; other site 246200012087 Walker B; other site 246200012088 D-loop; other site 246200012089 H-loop/switch region; other site 246200012090 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 246200012091 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 246200012092 substrate binding pocket [chemical binding]; other site 246200012093 membrane-bound complex binding site; other site 246200012094 hinge residues; other site 246200012095 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 246200012096 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 246200012097 dimer interface [polypeptide binding]; other site 246200012098 conserved gate region; other site 246200012099 putative PBP binding loops; other site 246200012100 ABC-ATPase subunit interface; other site 246200012101 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 246200012102 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 246200012103 dimer interface [polypeptide binding]; other site 246200012104 conserved gate region; other site 246200012105 putative PBP binding loops; other site 246200012106 ABC-ATPase subunit interface; other site 246200012107 hypothetical protein; Provisional; Region: PRK02853 246200012108 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 246200012109 Low molecular weight phosphatase family; Region: LMWPc; cl00105 246200012110 active site 246200012111 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 246200012112 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 246200012113 Predicted amidohydrolase [General function prediction only]; Region: COG0388 246200012114 putative active site [active] 246200012115 catalytic triad [active] 246200012116 putative dimer interface [polypeptide binding]; other site 246200012117 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 246200012118 rRNA binding site [nucleotide binding]; other site 246200012119 predicted 30S ribosome binding site; other site 246200012120 Maf-like protein; Region: Maf; pfam02545 246200012121 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 246200012122 active site 246200012123 dimer interface [polypeptide binding]; other site 246200012124 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 246200012125 Domain of unknown function (DUF329); Region: DUF329; pfam03884 246200012126 Family description; Region: UvrD_C_2; pfam13538 246200012127 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 246200012128 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 246200012129 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 246200012130 non-specific DNA binding site [nucleotide binding]; other site 246200012131 salt bridge; other site 246200012132 sequence-specific DNA binding site [nucleotide binding]; other site 246200012133 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 246200012134 polymerase nucleotide-binding site; other site 246200012135 DNA-binding residues [nucleotide binding]; DNA binding site 246200012136 nucleotide binding site [chemical binding]; other site 246200012137 primase nucleotide-binding site [nucleotide binding]; other site 246200012138 Primase C terminal 1 (PriCT-1); Region: PriCT_1; pfam08708 246200012139 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 246200012140 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 246200012141 Walker A motif; other site 246200012142 ATP binding site [chemical binding]; other site 246200012143 Walker B motif; other site 246200012144 integrase; Provisional; Region: PRK09692 246200012145 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 246200012146 active site 246200012147 Int/Topo IB signature motif; other site 246200012148 Flagellar P-ring protein; Region: FlgI; pfam02119 246200012149 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 246200012150 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 246200012151 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 246200012152 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 246200012153 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 246200012154 FAD binding domain; Region: FAD_binding_4; pfam01565 246200012155 Domain of unknown function (DUF4383); Region: DUF4383; pfam14325 246200012156 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 246200012157 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 246200012158 active site 246200012159 Zn binding site [ion binding]; other site 246200012160 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 246200012161 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 246200012162 TM-ABC transporter signature motif; other site 246200012163 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 246200012164 TM-ABC transporter signature motif; other site 246200012165 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200012166 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 246200012167 Walker A/P-loop; other site 246200012168 ATP binding site [chemical binding]; other site 246200012169 Q-loop/lid; other site 246200012170 ABC transporter signature motif; other site 246200012171 Walker B; other site 246200012172 D-loop; other site 246200012173 H-loop/switch region; other site 246200012174 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200012175 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 246200012176 Walker A/P-loop; other site 246200012177 ATP binding site [chemical binding]; other site 246200012178 Q-loop/lid; other site 246200012179 ABC transporter signature motif; other site 246200012180 Walker B; other site 246200012181 D-loop; other site 246200012182 H-loop/switch region; other site 246200012183 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 246200012184 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 246200012185 putative ligand binding site [chemical binding]; other site 246200012186 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 246200012187 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 246200012188 DNA binding residues [nucleotide binding] 246200012189 dimerization interface [polypeptide binding]; other site 246200012190 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 246200012191 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200012192 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 246200012193 NAD(P) binding site [chemical binding]; other site 246200012194 catalytic residues [active] 246200012195 Predicted transcriptional regulators [Transcription]; Region: COG1733 246200012196 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 246200012197 dimerization interface [polypeptide binding]; other site 246200012198 putative DNA binding site [nucleotide binding]; other site 246200012199 putative Zn2+ binding site [ion binding]; other site 246200012200 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 246200012201 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 246200012202 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200012203 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200012204 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 246200012205 dimerization interface [polypeptide binding]; other site 246200012206 substrate binding pocket [chemical binding]; other site 246200012207 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200012208 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 246200012209 MarR family; Region: MarR_2; pfam12802 246200012210 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 246200012211 MarR family; Region: MarR_2; pfam12802 246200012212 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 246200012213 active site 246200012214 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 246200012215 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 246200012216 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 246200012217 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 246200012218 dimer interface [polypeptide binding]; other site 246200012219 PYR/PP interface [polypeptide binding]; other site 246200012220 TPP binding site [chemical binding]; other site 246200012221 substrate binding site [chemical binding]; other site 246200012222 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 246200012223 TPP-binding site; other site 246200012224 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 246200012225 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200012226 NAD(P) binding site [chemical binding]; other site 246200012227 catalytic residues [active] 246200012228 hypothetical protein; Provisional; Region: PRK07481 246200012229 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 246200012230 inhibitor-cofactor binding pocket; inhibition site 246200012231 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012232 catalytic residue [active] 246200012233 Predicted amidohydrolase [General function prediction only]; Region: COG0388 246200012234 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 246200012235 putative active site [active] 246200012236 catalytic triad [active] 246200012237 putative dimer interface [polypeptide binding]; other site 246200012238 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 246200012239 Cupin domain; Region: Cupin_2; pfam07883 246200012240 Cupin domain; Region: Cupin_2; pfam07883 246200012241 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 246200012242 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 246200012243 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200012244 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 246200012245 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 246200012246 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 246200012247 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 246200012248 Sulfatase; Region: Sulfatase; cl17466 246200012249 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 246200012250 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 246200012251 CHAT domain; Region: CHAT; pfam12770 246200012252 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200012253 AAA domain; Region: AAA_21; pfam13304 246200012254 Walker A/P-loop; other site 246200012255 ATP binding site [chemical binding]; other site 246200012256 TIGR02646 family protein; Region: TIGR02646 246200012257 short chain dehydrogenase; Provisional; Region: PRK07577 246200012258 classical (c) SDRs; Region: SDR_c; cd05233 246200012259 NAD(P) binding site [chemical binding]; other site 246200012260 active site 246200012261 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 246200012262 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 246200012263 DUF35 OB-fold domain; Region: DUF35; pfam01796 246200012264 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 246200012265 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 246200012266 NAD(P) binding site [chemical binding]; other site 246200012267 active site 246200012268 acetyl-CoA acetyltransferase; Provisional; Region: PRK06066 246200012269 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 246200012270 active site 246200012271 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 246200012272 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 246200012273 acyl-activating enzyme (AAE) consensus motif; other site 246200012274 putative AMP binding site [chemical binding]; other site 246200012275 putative active site [active] 246200012276 putative CoA binding site [chemical binding]; other site 246200012277 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 246200012278 inter-subunit interface; other site 246200012279 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 246200012280 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 246200012281 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 246200012282 putative alpha subunit interface [polypeptide binding]; other site 246200012283 putative active site [active] 246200012284 putative substrate binding site [chemical binding]; other site 246200012285 Fe binding site [ion binding]; other site 246200012286 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 246200012287 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 246200012288 FMN-binding pocket [chemical binding]; other site 246200012289 flavin binding motif; other site 246200012290 phosphate binding motif [ion binding]; other site 246200012291 beta-alpha-beta structure motif; other site 246200012292 NAD binding pocket [chemical binding]; other site 246200012293 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 246200012294 catalytic loop [active] 246200012295 iron binding site [ion binding]; other site 246200012296 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 246200012297 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 246200012298 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 246200012299 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 246200012300 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 246200012301 hinge; other site 246200012302 active site 246200012303 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 246200012304 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 246200012305 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 246200012306 glutaminase active site [active] 246200012307 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 246200012308 dimer interface [polypeptide binding]; other site 246200012309 active site 246200012310 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 246200012311 dimer interface [polypeptide binding]; other site 246200012312 active site 246200012313 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 246200012314 RES domain; Region: RES; cl02411 246200012315 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 246200012316 Transcriptional regulator [Transcription]; Region: IclR; COG1414 246200012317 Bacterial transcriptional regulator; Region: IclR; pfam01614 246200012318 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 246200012319 homodimer interface [polypeptide binding]; other site 246200012320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012321 catalytic residue [active] 246200012322 serine racemase; Region: PLN02970 246200012323 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 246200012324 tetramer interface [polypeptide binding]; other site 246200012325 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012326 catalytic residue [active] 246200012327 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 246200012328 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 246200012329 dimer interface [polypeptide binding]; other site 246200012330 active site 246200012331 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 246200012332 substrate binding site [chemical binding]; other site 246200012333 catalytic residue [active] 246200012334 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 246200012335 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 246200012336 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 246200012337 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200012338 DNA-binding site [nucleotide binding]; DNA binding site 246200012339 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 246200012340 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012341 homodimer interface [polypeptide binding]; other site 246200012342 catalytic residue [active] 246200012343 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 246200012344 Helix-turn-helix domain; Region: HTH_18; pfam12833 246200012345 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200012346 Cytochrome c; Region: Cytochrom_C; pfam00034 246200012347 Cytochrome c; Region: Cytochrom_C; pfam00034 246200012348 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 246200012349 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 246200012350 TPR motif; other site 246200012351 binding surface 246200012352 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 246200012353 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 246200012354 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 246200012355 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 246200012356 D-cysteine desulfhydrase; Validated; Region: PRK03910 246200012357 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 246200012358 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200012359 catalytic residue [active] 246200012360 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200012361 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200012362 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 246200012363 dimerization interface [polypeptide binding]; other site 246200012364 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 246200012365 DctM-like transporters; Region: DctM; pfam06808 246200012366 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 246200012367 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200012368 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 246200012369 homodimer interface [polypeptide binding]; other site 246200012370 catalytic residues [active] 246200012371 NAD binding site [chemical binding]; other site 246200012372 substrate binding pocket [chemical binding]; other site 246200012373 flexible flap; other site 246200012374 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 246200012375 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200012376 DNA-binding site [nucleotide binding]; DNA binding site 246200012377 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 246200012378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012379 homodimer interface [polypeptide binding]; other site 246200012380 catalytic residue [active] 246200012381 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200012382 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200012383 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 246200012384 dimerization interface [polypeptide binding]; other site 246200012385 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 246200012386 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 246200012387 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 246200012388 DctM-like transporters; Region: DctM; pfam06808 246200012389 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200012390 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 246200012391 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200012392 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 246200012393 MOSC domain; Region: MOSC; pfam03473 246200012394 MarR family; Region: MarR_2; pfam12802 246200012395 Hexameric tyrosine-coordinated heme protein (HTHP); Region: HTHP; pfam11534 246200012396 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 246200012397 MOSC domain; Region: MOSC; pfam03473 246200012398 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 246200012399 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 246200012400 FMN-binding pocket [chemical binding]; other site 246200012401 flavin binding motif; other site 246200012402 phosphate binding motif [ion binding]; other site 246200012403 beta-alpha-beta structure motif; other site 246200012404 NAD binding pocket [chemical binding]; other site 246200012405 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 246200012406 catalytic loop [active] 246200012407 iron binding site [ion binding]; other site 246200012408 Protein of unknown function (DUF3088); Region: DUF3088; pfam11287 246200012409 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200012410 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 246200012411 dimerization interface [polypeptide binding]; other site 246200012412 Cytochrome c2 [Energy production and conversion]; Region: COG3474 246200012413 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 246200012414 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 246200012415 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 246200012416 Cu(I) binding site [ion binding]; other site 246200012417 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 246200012418 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 246200012419 D-pathway; other site 246200012420 Low-spin heme binding site [chemical binding]; other site 246200012421 Putative water exit pathway; other site 246200012422 Binuclear center (active site) [active] 246200012423 K-pathway; other site 246200012424 Putative proton exit pathway; other site 246200012425 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 246200012426 Transcriptional regulator; Region: Rrf2; cl17282 246200012427 Rrf2 family protein; Region: rrf2_super; TIGR00738 246200012428 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 246200012429 Cytochrome c; Region: Cytochrom_C; pfam00034 246200012430 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 246200012431 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 246200012432 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 246200012433 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 246200012434 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 246200012435 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 246200012436 Low-spin heme binding site [chemical binding]; other site 246200012437 Putative water exit pathway; other site 246200012438 Binuclear center (active site) [active] 246200012439 Putative proton exit pathway; other site 246200012440 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 246200012441 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 246200012442 heme-binding site [chemical binding]; other site 246200012443 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 246200012444 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 246200012445 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 246200012446 substrate-cofactor binding pocket; other site 246200012447 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012448 catalytic residue [active] 246200012449 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 246200012450 TPR motif; other site 246200012451 binding surface 246200012452 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 246200012453 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 246200012454 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 246200012455 catalytic residues [active] 246200012456 central insert; other site 246200012457 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 246200012458 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 246200012459 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200012460 DNA-binding site [nucleotide binding]; DNA binding site 246200012461 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 246200012462 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012463 homodimer interface [polypeptide binding]; other site 246200012464 catalytic residue [active] 246200012465 Seven times multi-haem cytochrome CxxCH; Region: Multi-haem_cyto; pfam13447 246200012466 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 246200012467 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 246200012468 NAD binding site [chemical binding]; other site 246200012469 dimerization interface [polypeptide binding]; other site 246200012470 product binding site; other site 246200012471 substrate binding site [chemical binding]; other site 246200012472 zinc binding site [ion binding]; other site 246200012473 catalytic residues [active] 246200012474 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 246200012475 active site 246200012476 catalytic residues [active] 246200012477 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 246200012478 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 246200012479 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 246200012480 ligand binding site [chemical binding]; other site 246200012481 flexible hinge region; other site 246200012482 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 246200012483 non-specific DNA interactions [nucleotide binding]; other site 246200012484 DNA binding site [nucleotide binding] 246200012485 sequence specific DNA binding site [nucleotide binding]; other site 246200012486 putative cAMP binding site [chemical binding]; other site 246200012487 SAM domain (Sterile alpha motif); Region: SAM_2; pfam07647 246200012488 SAM (Sterile alpha motif ); Region: SAM_superfamily; cd09487 246200012489 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 246200012490 cyclase homology domain; Region: CHD; cd07302 246200012491 nucleotidyl binding site; other site 246200012492 metal binding site [ion binding]; metal-binding site 246200012493 dimer interface [polypeptide binding]; other site 246200012494 Predicted ATPase [General function prediction only]; Region: COG3899 246200012495 AAA ATPase domain; Region: AAA_16; pfam13191 246200012496 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 246200012497 FAD binding domain; Region: FAD_binding_4; pfam01565 246200012498 Berberine and berberine like; Region: BBE; pfam08031 246200012499 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 246200012500 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200012501 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 246200012502 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 246200012503 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 246200012504 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 246200012505 PhoU domain; Region: PhoU; pfam01895 246200012506 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 246200012507 Subunit I/III interface [polypeptide binding]; other site 246200012508 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 246200012509 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 246200012510 metal ion-dependent adhesion site (MIDAS); other site 246200012511 MoxR-like ATPases [General function prediction only]; Region: COG0714 246200012512 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 246200012513 Walker A motif; other site 246200012514 ATP binding site [chemical binding]; other site 246200012515 Walker B motif; other site 246200012516 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 246200012517 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 246200012518 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 246200012519 Binuclear center (active site) [active] 246200012520 K-pathway; other site 246200012521 Putative proton exit pathway; other site 246200012522 Putative water exit pathway; other site 246200012523 Cytochrome c; Region: Cytochrom_C; pfam00034 246200012524 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 246200012525 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 246200012526 Cl binding site [ion binding]; other site 246200012527 oligomer interface [polypeptide binding]; other site 246200012528 NnrS protein; Region: NnrS; pfam05940 246200012529 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 246200012530 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 246200012531 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 246200012532 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 246200012533 active site 246200012534 SAM binding site [chemical binding]; other site 246200012535 homodimer interface [polypeptide binding]; other site 246200012536 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 246200012537 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 246200012538 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 246200012539 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200012540 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 246200012541 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200012542 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200012543 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 246200012544 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200012545 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 246200012546 heme d1 biosynthesis radical SAM protein NirJ; Region: rSAM_NirJ; TIGR04051 246200012547 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 246200012548 FeS/SAM binding site; other site 246200012549 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 246200012550 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 246200012551 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 246200012552 Cytochrome D1 heme domain; Region: Cytochrom_D1; pfam02239 246200012553 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200012554 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200012555 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 246200012556 dimerization interface [polypeptide binding]; other site 246200012557 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 246200012558 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 246200012559 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 246200012560 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 246200012561 Walker A/P-loop; other site 246200012562 ATP binding site [chemical binding]; other site 246200012563 Q-loop/lid; other site 246200012564 ABC transporter signature motif; other site 246200012565 Walker B; other site 246200012566 D-loop; other site 246200012567 H-loop/switch region; other site 246200012568 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 246200012569 dimer interface [polypeptide binding]; other site 246200012570 conserved gate region; other site 246200012571 ABC-ATPase subunit interface; other site 246200012572 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 246200012573 agmatinase; Region: agmatinase; TIGR01230 246200012574 active site 246200012575 metal binding site [ion binding]; metal-binding site 246200012576 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 246200012577 agmatinase; Region: agmatinase; TIGR01230 246200012578 oligomer interface [polypeptide binding]; other site 246200012579 putative active site [active] 246200012580 Mn binding site [ion binding]; other site 246200012581 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 246200012582 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 246200012583 ATP binding site [chemical binding]; other site 246200012584 Mg2+ binding site [ion binding]; other site 246200012585 G-X-G motif; other site 246200012586 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 246200012587 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 246200012588 active site 246200012589 phosphorylation site [posttranslational modification] 246200012590 intermolecular recognition site; other site 246200012591 dimerization interface [polypeptide binding]; other site 246200012592 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 246200012593 Walker A motif; other site 246200012594 ATP binding site [chemical binding]; other site 246200012595 Walker B motif; other site 246200012596 arginine finger; other site 246200012597 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 246200012598 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200012599 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200012600 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 246200012601 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 246200012602 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 246200012603 Transcriptional regulators [Transcription]; Region: PurR; COG1609 246200012604 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 246200012605 DNA binding site [nucleotide binding] 246200012606 domain linker motif; other site 246200012607 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 246200012608 putative dimerization interface [polypeptide binding]; other site 246200012609 putative ligand binding site [chemical binding]; other site 246200012610 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 246200012611 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 246200012612 dimer interface [polypeptide binding]; other site 246200012613 NADP binding site [chemical binding]; other site 246200012614 catalytic residues [active] 246200012615 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 246200012616 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 246200012617 inhibitor site; inhibition site 246200012618 active site 246200012619 dimer interface [polypeptide binding]; other site 246200012620 catalytic residue [active] 246200012621 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 246200012622 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 246200012623 putative active site pocket [active] 246200012624 putative metal binding site [ion binding]; other site 246200012625 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 246200012626 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 246200012627 Uncharacterized conserved protein [Function unknown]; Region: COG3391 246200012628 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 246200012629 Domain of unknown function (DUF336); Region: DUF336; pfam03928 246200012630 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200012631 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 246200012632 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 246200012633 DctM-like transporters; Region: DctM; pfam06808 246200012634 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 246200012635 Transcriptional regulators [Transcription]; Region: PurR; COG1609 246200012636 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 246200012637 DNA binding site [nucleotide binding] 246200012638 domain linker motif; other site 246200012639 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 246200012640 putative dimerization interface [polypeptide binding]; other site 246200012641 putative ligand binding site [chemical binding]; other site 246200012642 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 246200012643 Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs; Region: PBP1_LuxPQ_Quorum_Sensing; cd06303 246200012644 ligand binding site [chemical binding]; other site 246200012645 subunit interaction site [polypeptide binding]; other site 246200012646 calcium binding site [ion binding]; other site 246200012647 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 246200012648 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 246200012649 TM-ABC transporter signature motif; other site 246200012650 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 246200012651 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200012652 Walker A/P-loop; other site 246200012653 ATP binding site [chemical binding]; other site 246200012654 Q-loop/lid; other site 246200012655 ABC transporter signature motif; other site 246200012656 Walker B; other site 246200012657 D-loop; other site 246200012658 H-loop/switch region; other site 246200012659 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 246200012660 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_6; cd06315 246200012661 putative ligand binding site [chemical binding]; other site 246200012662 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 246200012663 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 246200012664 TM-ABC transporter signature motif; other site 246200012665 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 246200012666 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 246200012667 Walker A/P-loop; other site 246200012668 ATP binding site [chemical binding]; other site 246200012669 Q-loop/lid; other site 246200012670 ABC transporter signature motif; other site 246200012671 Walker B; other site 246200012672 D-loop; other site 246200012673 H-loop/switch region; other site 246200012674 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 246200012675 Transcriptional regulators [Transcription]; Region: PurR; COG1609 246200012676 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 246200012677 DNA binding site [nucleotide binding] 246200012678 domain linker motif; other site 246200012679 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 246200012680 putative dimerization interface [polypeptide binding]; other site 246200012681 putative ligand binding site [chemical binding]; other site 246200012682 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 246200012683 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 246200012684 dimer interface [polypeptide binding]; other site 246200012685 NADP binding site [chemical binding]; other site 246200012686 catalytic residues [active] 246200012687 Transcriptional regulators [Transcription]; Region: GntR; COG1802 246200012688 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200012689 DNA-binding site [nucleotide binding]; DNA binding site 246200012690 FCD domain; Region: FCD; pfam07729 246200012691 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 246200012692 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200012693 DctM-like transporters; Region: DctM; pfam06808 246200012694 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 246200012695 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 246200012696 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200012697 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 246200012698 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 246200012699 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 246200012700 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 246200012701 inhibitor site; inhibition site 246200012702 active site 246200012703 dimer interface [polypeptide binding]; other site 246200012704 catalytic residue [active] 246200012705 Transcriptional regulator [Transcription]; Region: IclR; COG1414 246200012706 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 246200012707 putative DNA binding site [nucleotide binding]; other site 246200012708 putative Zn2+ binding site [ion binding]; other site 246200012709 Bacterial transcriptional regulator; Region: IclR; pfam01614 246200012710 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 246200012711 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 246200012712 Cu(I) binding site [ion binding]; other site 246200012713 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 246200012714 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 246200012715 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 246200012716 substrate binding site [chemical binding]; other site 246200012717 catalytic Zn binding site [ion binding]; other site 246200012718 NAD binding site [chemical binding]; other site 246200012719 structural Zn binding site [ion binding]; other site 246200012720 dimer interface [polypeptide binding]; other site 246200012721 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 246200012722 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 246200012723 non-specific DNA binding site [nucleotide binding]; other site 246200012724 salt bridge; other site 246200012725 sequence-specific DNA binding site [nucleotide binding]; other site 246200012726 Cupin domain; Region: Cupin_2; pfam07883 246200012727 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 246200012728 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 246200012729 inhibitor-cofactor binding pocket; inhibition site 246200012730 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012731 catalytic residue [active] 246200012732 succinic semialdehyde dehydrogenase; Region: PLN02278 246200012733 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 246200012734 tetramerization interface [polypeptide binding]; other site 246200012735 NAD(P) binding site [chemical binding]; other site 246200012736 catalytic residues [active] 246200012737 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 246200012738 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 246200012739 putative substrate binding site [chemical binding]; other site 246200012740 putative ATP binding site [chemical binding]; other site 246200012741 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200012742 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 246200012743 DctM-like transporters; Region: DctM; pfam06808 246200012744 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 246200012745 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 246200012746 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 246200012747 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200012748 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200012749 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200012750 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 246200012751 dimerization interface [polypeptide binding]; other site 246200012752 malonyl-CoA synthase; Validated; Region: PRK07514 246200012753 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 246200012754 acyl-activating enzyme (AAE) consensus motif; other site 246200012755 active site 246200012756 AMP binding site [chemical binding]; other site 246200012757 CoA binding site [chemical binding]; other site 246200012758 choline dehydrogenase; Validated; Region: PRK02106 246200012759 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 246200012760 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200012761 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200012762 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 246200012763 dimerization interface [polypeptide binding]; other site 246200012764 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 246200012765 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 246200012766 substrate binding site [chemical binding]; other site 246200012767 oxyanion hole (OAH) forming residues; other site 246200012768 trimer interface [polypeptide binding]; other site 246200012769 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 246200012770 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 246200012771 conserved cys residue [active] 246200012772 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 246200012773 CoA binding domain; Region: CoA_binding_2; pfam13380 246200012774 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 246200012775 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 246200012776 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200012777 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200012778 active site 246200012779 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 246200012780 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 246200012781 conserved cys residue [active] 246200012782 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200012783 HTH DNA binding domain; Region: HTH_13; pfam11972 246200012784 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 246200012785 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 246200012786 homodimer interface [polypeptide binding]; other site 246200012787 substrate-cofactor binding pocket; other site 246200012788 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012789 catalytic residue [active] 246200012790 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 246200012791 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 246200012792 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 246200012793 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 246200012794 S-adenosylmethionine binding site [chemical binding]; other site 246200012795 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 246200012796 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 246200012797 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 246200012798 Walker A/P-loop; other site 246200012799 ATP binding site [chemical binding]; other site 246200012800 Q-loop/lid; other site 246200012801 ABC transporter signature motif; other site 246200012802 Walker B; other site 246200012803 D-loop; other site 246200012804 H-loop/switch region; other site 246200012805 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 246200012806 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 246200012807 Walker A/P-loop; other site 246200012808 ATP binding site [chemical binding]; other site 246200012809 Q-loop/lid; other site 246200012810 ABC transporter signature motif; other site 246200012811 Walker B; other site 246200012812 D-loop; other site 246200012813 H-loop/switch region; other site 246200012814 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 246200012815 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 246200012816 TM-ABC transporter signature motif; other site 246200012817 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 246200012818 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 246200012819 TM-ABC transporter signature motif; other site 246200012820 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 246200012821 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 246200012822 putative ligand binding site [chemical binding]; other site 246200012823 Transcriptional regulators [Transcription]; Region: GntR; COG1802 246200012824 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200012825 DNA-binding site [nucleotide binding]; DNA binding site 246200012826 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 246200012827 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 246200012828 active site 246200012829 DNA binding site [nucleotide binding] 246200012830 Int/Topo IB signature motif; other site 246200012831 ParB-like nuclease domain; Region: ParBc; pfam02195 246200012832 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 246200012833 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 246200012834 P-loop; other site 246200012835 Magnesium ion binding site [ion binding]; other site 246200012836 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 246200012837 Magnesium ion binding site [ion binding]; other site 246200012838 DnaA N-terminal domain; Region: DnaA_N; pfam11638 246200012839 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 246200012840 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 246200012841 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 246200012842 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 246200012843 RNA binding site [nucleotide binding]; other site 246200012844 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 246200012845 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 246200012846 PYR/PP interface [polypeptide binding]; other site 246200012847 dimer interface [polypeptide binding]; other site 246200012848 TPP binding site [chemical binding]; other site 246200012849 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 246200012850 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 246200012851 TPP-binding site; other site 246200012852 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200012853 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200012854 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200012855 hydroxyglutarate oxidase; Provisional; Region: PRK11728 246200012856 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 246200012857 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 246200012858 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 246200012859 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 246200012860 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 246200012861 catalytic residue [active] 246200012862 Trimethylamine methyltransferase (MTTB); Region: MTTB; cl15385 246200012863 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 246200012864 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200012865 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 246200012866 dimerization interface [polypeptide binding]; other site 246200012867 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 246200012868 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 246200012869 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 246200012870 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 246200012871 active site 246200012872 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 246200012873 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 246200012874 dimerization interface [polypeptide binding]; other site 246200012875 putative DNA binding site [nucleotide binding]; other site 246200012876 putative Zn2+ binding site [ion binding]; other site 246200012877 AsnC family; Region: AsnC_trans_reg; pfam01037 246200012878 methionine gamma-lyase; Provisional; Region: PRK07503 246200012879 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 246200012880 homodimer interface [polypeptide binding]; other site 246200012881 substrate-cofactor binding pocket; other site 246200012882 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012883 catalytic residue [active] 246200012884 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 246200012885 TPP-binding site [chemical binding]; other site 246200012886 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 246200012887 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 246200012888 PYR/PP interface [polypeptide binding]; other site 246200012889 dimer interface [polypeptide binding]; other site 246200012890 TPP binding site [chemical binding]; other site 246200012891 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 246200012892 putative substrate binding pocket [chemical binding]; other site 246200012893 trimer interface [polypeptide binding]; other site 246200012894 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 246200012895 active site 246200012896 metal binding site [ion binding]; metal-binding site 246200012897 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 246200012898 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 246200012899 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 246200012900 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 246200012901 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 246200012902 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 246200012903 ligand binding site [chemical binding]; other site 246200012904 flexible hinge region; other site 246200012905 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 246200012906 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 246200012907 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 246200012908 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 246200012909 FMN binding site [chemical binding]; other site 246200012910 substrate binding site [chemical binding]; other site 246200012911 putative catalytic residue [active] 246200012912 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200012913 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200012914 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 246200012915 dimerization interface [polypeptide binding]; other site 246200012916 RTX toxin acyltransferase family; Region: HlyC; cl01131 246200012917 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 246200012918 active site 246200012919 dimer interfaces [polypeptide binding]; other site 246200012920 catalytic residues [active] 246200012921 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 246200012922 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 246200012923 active site 246200012924 intersubunit interface [polypeptide binding]; other site 246200012925 catalytic residue [active] 246200012926 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 246200012927 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 246200012928 substrate binding site [chemical binding]; other site 246200012929 ATP binding site [chemical binding]; other site 246200012930 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 246200012931 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 246200012932 DctM-like transporters; Region: DctM; pfam06808 246200012933 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 246200012934 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200012935 Transcriptional regulators [Transcription]; Region: PurR; COG1609 246200012936 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 246200012937 DNA binding site [nucleotide binding] 246200012938 domain linker motif; other site 246200012939 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 246200012940 putative dimerization interface [polypeptide binding]; other site 246200012941 putative ligand binding site [chemical binding]; other site 246200012942 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 246200012943 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200012944 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 246200012945 substrate binding pocket [chemical binding]; other site 246200012946 dimerization interface [polypeptide binding]; other site 246200012947 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 246200012948 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 246200012949 motif II; other site 246200012950 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 246200012951 active site 1 [active] 246200012952 dimer interface [polypeptide binding]; other site 246200012953 hexamer interface [polypeptide binding]; other site 246200012954 active site 2 [active] 246200012955 A-factor biosynthesis hotdog domain; Region: AfsA; pfam03756 246200012956 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200012957 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200012958 LysR substrate binding domain; Region: LysR_substrate; pfam03466 246200012959 dimerization interface [polypeptide binding]; other site 246200012960 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 246200012961 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 246200012962 active site 246200012963 catalytic tetrad [active] 246200012964 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 246200012965 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 246200012966 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 246200012967 putative substrate translocation pore; other site 246200012968 MarR family; Region: MarR_2; cl17246 246200012969 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 246200012970 EamA-like transporter family; Region: EamA; pfam00892 246200012971 hypothetical protein; Provisional; Region: PRK07481 246200012972 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 246200012973 inhibitor-cofactor binding pocket; inhibition site 246200012974 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012975 catalytic residue [active] 246200012976 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 246200012977 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200012978 NAD(P) binding site [chemical binding]; other site 246200012979 catalytic residues [active] 246200012980 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 246200012981 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 246200012982 inhibitor-cofactor binding pocket; inhibition site 246200012983 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200012984 catalytic residue [active] 246200012985 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 246200012986 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 246200012987 active site 246200012988 ATP binding site [chemical binding]; other site 246200012989 substrate binding site [chemical binding]; other site 246200012990 hypothetical protein; Provisional; Region: PRK02399 246200012991 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 246200012992 osmolarity response regulator; Provisional; Region: ompR; PRK09468 246200012993 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 246200012994 active site 246200012995 phosphorylation site [posttranslational modification] 246200012996 intermolecular recognition site; other site 246200012997 dimerization interface [polypeptide binding]; other site 246200012998 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 246200012999 DNA binding site [nucleotide binding] 246200013000 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 246200013001 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 246200013002 dimerization interface [polypeptide binding]; other site 246200013003 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 246200013004 dimer interface [polypeptide binding]; other site 246200013005 phosphorylation site [posttranslational modification] 246200013006 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 246200013007 ATP binding site [chemical binding]; other site 246200013008 Mg2+ binding site [ion binding]; other site 246200013009 G-X-G motif; other site 246200013010 Cytochrome c; Region: Cytochrom_C; pfam00034 246200013011 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 246200013012 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 246200013013 Multicopper oxidase; Region: Cu-oxidase; pfam00394 246200013014 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 246200013015 Cytochrome c; Region: Cytochrom_C; pfam00034 246200013016 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 246200013017 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 246200013018 catalytic residues [active] 246200013019 Uncharacterized conserved protein [Function unknown]; Region: COG0398 246200013020 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 246200013021 Uncharacterized conserved protein [Function unknown]; Region: COG3391 246200013022 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 246200013023 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 246200013024 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 246200013025 motif II; other site 246200013026 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 246200013027 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 246200013028 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 246200013029 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 246200013030 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 246200013031 Multicopper oxidase; Region: Cu-oxidase; pfam00394 246200013032 Copper resistance protein B precursor (CopB); Region: CopB; cl01476 246200013033 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 246200013034 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 246200013035 DctM-like transporters; Region: DctM; pfam06808 246200013036 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 246200013037 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 246200013038 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200013039 DNA-binding site [nucleotide binding]; DNA binding site 246200013040 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 246200013041 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 246200013042 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200013043 homodimer interface [polypeptide binding]; other site 246200013044 catalytic residue [active] 246200013045 Epoxide hydrolase N terminus; Region: EHN; pfam06441 246200013046 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 246200013047 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 246200013048 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 246200013049 NAD(P) binding site [chemical binding]; other site 246200013050 catalytic residues [active] 246200013051 galactonate dehydratase; Provisional; Region: PRK14017 246200013052 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 246200013053 active site pocket [active] 246200013054 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200013055 DNA-binding site [nucleotide binding]; DNA binding site 246200013056 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 246200013057 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 246200013058 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200013059 homodimer interface [polypeptide binding]; other site 246200013060 catalytic residue [active] 246200013061 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 246200013062 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200013063 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 246200013064 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 246200013065 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 246200013066 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 246200013067 Walker A/P-loop; other site 246200013068 ATP binding site [chemical binding]; other site 246200013069 Q-loop/lid; other site 246200013070 ABC transporter signature motif; other site 246200013071 Walker B; other site 246200013072 D-loop; other site 246200013073 H-loop/switch region; other site 246200013074 TOBE domain; Region: TOBE_2; pfam08402 246200013075 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 246200013076 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 246200013077 dimer interface [polypeptide binding]; other site 246200013078 conserved gate region; other site 246200013079 putative PBP binding loops; other site 246200013080 ABC-ATPase subunit interface; other site 246200013081 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 246200013082 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 246200013083 dimer interface [polypeptide binding]; other site 246200013084 conserved gate region; other site 246200013085 putative PBP binding loops; other site 246200013086 ABC-ATPase subunit interface; other site 246200013087 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 246200013088 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 246200013089 choline dehydrogenase; Validated; Region: PRK02106 246200013090 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 246200013091 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 246200013092 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 246200013093 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200013094 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 246200013095 dimerization interface [polypeptide binding]; other site 246200013096 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 246200013097 CoA binding domain; Region: CoA_binding_2; pfam13380 246200013098 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 246200013099 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 246200013100 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 246200013101 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 246200013102 DNA binding residues [nucleotide binding] 246200013103 dimer interface [polypeptide binding]; other site 246200013104 putative metal binding site [ion binding]; other site 246200013105 Sulfatase; Region: Sulfatase; cl17466 246200013106 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 246200013107 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 246200013108 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 246200013109 ligand binding site [chemical binding]; other site 246200013110 flexible hinge region; other site 246200013111 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; cl17320 246200013112 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 246200013113 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 246200013114 DNA binding residues [nucleotide binding] 246200013115 Killing trait; Region: RebB; pfam11747 246200013116 Killing trait; Region: RebB; pfam11747 246200013117 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 246200013118 homotrimer interaction site [polypeptide binding]; other site 246200013119 putative active site [active] 246200013120 2-aminobenzoate-CoA ligase (ABCL); Region: ABCL; cd05958 246200013121 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 246200013122 putative dimer interface [polypeptide binding]; other site 246200013123 acyl-activating enzyme (AAE) consensus motif; other site 246200013124 putative active site [active] 246200013125 putative AMP binding site [chemical binding]; other site 246200013126 putative CoA binding site [chemical binding]; other site 246200013127 putative chemical substrate binding site [chemical binding]; other site 246200013128 Cupin domain; Region: Cupin_2; pfam07883 246200013129 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 246200013130 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 246200013131 active site 246200013132 enoyl-CoA hydratase; Provisional; Region: PRK06688 246200013133 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 246200013134 substrate binding site [chemical binding]; other site 246200013135 oxyanion hole (OAH) forming residues; other site 246200013136 trimer interface [polypeptide binding]; other site 246200013137 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 246200013138 MarR family; Region: MarR; pfam01047 246200013139 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 246200013140 classical (c) SDRs; Region: SDR_c; cd05233 246200013141 NAD(P) binding site [chemical binding]; other site 246200013142 active site 246200013143 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 246200013144 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 246200013145 active site 246200013146 FMN binding site [chemical binding]; other site 246200013147 substrate binding site [chemical binding]; other site 246200013148 homotetramer interface [polypeptide binding]; other site 246200013149 catalytic residue [active] 246200013150 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 246200013151 Protein of unknown function (DUF2974); Region: DUF2974; pfam11187 246200013152 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 246200013153 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 246200013154 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 246200013155 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 246200013156 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 246200013157 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 246200013158 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 246200013159 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 246200013160 Ubiquitin-like proteins; Region: UBQ; cl00155 246200013161 charged pocket; other site 246200013162 hydrophobic patch; other site 246200013163 hypothetical protein; Provisional; Region: PRK07475 246200013164 Transcriptional regulators [Transcription]; Region: GntR; COG1802 246200013165 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 246200013166 DNA-binding site [nucleotide binding]; DNA binding site 246200013167 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 246200013168 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 246200013169 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 246200013170 PYR/PP interface [polypeptide binding]; other site 246200013171 dimer interface [polypeptide binding]; other site 246200013172 TPP binding site [chemical binding]; other site 246200013173 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 246200013174 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 246200013175 TPP-binding site [chemical binding]; other site 246200013176 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 246200013177 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 246200013178 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 246200013179 SnoaL-like domain; Region: SnoaL_2; pfam12680 246200013180 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 246200013181 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 246200013182 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 246200013183 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 246200013184 substrate binding site [chemical binding]; other site 246200013185 oxyanion hole (OAH) forming residues; other site 246200013186 trimer interface [polypeptide binding]; other site 246200013187 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 246200013188 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200013189 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 246200013190 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 246200013191 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 246200013192 dimer interface [polypeptide binding]; other site 246200013193 active site 246200013194 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 246200013195 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 246200013196 SurA N-terminal domain; Region: SurA_N; pfam09312 246200013197 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 246200013198 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 246200013199 dimerization interface [polypeptide binding]; other site 246200013200 putative DNA binding site [nucleotide binding]; other site 246200013201 putative Zn2+ binding site [ion binding]; other site 246200013202 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 246200013203 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 246200013204 active site pocket [active] 246200013205 hypothetical protein; Provisional; Region: PRK08262 246200013206 M20 Peptidase, carboxypeptidase yscS; Region: M20_yscS; cd05674 246200013207 metal binding site [ion binding]; metal-binding site 246200013208 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 246200013209 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 246200013210 NAD binding site [chemical binding]; other site 246200013211 catalytic Zn binding site [ion binding]; other site 246200013212 substrate binding site [chemical binding]; other site 246200013213 structural Zn binding site [ion binding]; other site 246200013214 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 246200013215 Major Facilitator Superfamily; Region: MFS_1; pfam07690 246200013216 putative substrate translocation pore; other site 246200013217 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 246200013218 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 246200013219 tetramer interface [polypeptide binding]; other site 246200013220 active site 246200013221 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 246200013222 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 246200013223 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 246200013224 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 246200013225 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 246200013226 tetramer interface [polypeptide binding]; other site 246200013227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 246200013228 catalytic residue [active] 246200013229 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 246200013230 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 246200013231 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 246200013232 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 246200013233 motif II; other site 246200013234 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 246200013235 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 246200013236 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 246200013237 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 246200013238 NAD binding site [chemical binding]; other site 246200013239 homotetramer interface [polypeptide binding]; other site 246200013240 homodimer interface [polypeptide binding]; other site 246200013241 substrate binding site [chemical binding]; other site 246200013242 active site 246200013243 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 246200013244 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 246200013245 dimer interface [polypeptide binding]; other site 246200013246 active site 246200013247 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 246200013248 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 246200013249 active site 1 [active] 246200013250 dimer interface [polypeptide binding]; other site 246200013251 active site 2 [active] 246200013252 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 246200013253 metal binding site 2 [ion binding]; metal-binding site 246200013254 putative DNA binding helix; other site 246200013255 metal binding site 1 [ion binding]; metal-binding site 246200013256 dimer interface [polypeptide binding]; other site 246200013257 structural Zn2+ binding site [ion binding]; other site 246200013258 Transcriptional regulator [Transcription]; Region: LysR; COG0583 246200013259 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 246200013260 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 246200013261 dimerization interface [polypeptide binding]; other site